Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 7 of 770
Found at i:1900794 original size:15 final size:16
Alignment explanation
Indices: 1900762--1900798 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
1900752 GATTGATTTA
*
1900762 TTATTTTTAATTAGAT
1 TTATTTTTAATCAGAT
1900778 TTATTTTTAATCA-AT
1 TTATTTTTAATCAGAT
1900793 TTATTT
1 TTATTT
1900799 GATTTTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (16 bp):
TTATTTTTAATCAGAT
Found at i:1900815 original size:20 final size:19
Alignment explanation
Indices: 1900776--1900816 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
1900766 TTTTAATTAG
*
1900776 ATTTATTTTTAATCAATTT
1 ATTTATTTTTAAACAATTT
*
1900795 ATTTGATTTTTAAACATTTT
1 ATTT-ATTTTTAAACAATTT
1900815 AT
1 AT
1900817 ATATACTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (19 bp):
ATTTATTTTTAAACAATTT
Found at i:1901008 original size:23 final size:23
Alignment explanation
Indices: 1900976--1901026 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
1900966 TGAGAGAGAG
1900976 AAAAAAATATT-AGAATGGATAAA
1 AAAAAAATATTGAGAATGGA-AAA
* *
1900999 AAATAAATATTGAGAATTGAAAA
1 AAAAAAATATTGAGAATGGAAAA
1901022 AAAAA
1 AAAAA
1901027 TCAATACTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.67, C:0.00, G:0.12, T:0.22
Consensus pattern (23 bp):
AAAAAAATATTGAGAATGGAAAA
Found at i:1902907 original size:40 final size:40
Alignment explanation
Indices: 1902845--1902922 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
1902835 TGACAGTTGG
1902845 TACCACACCCATGACAGCAGTAATAGCATGCAACCACCAA
1 TACCACACCCATGACAGCAGTAATAGCATGCAACCACCAA
** * *
1902885 TACCACACCCATGATTGTAGTAATAGTATGCAACCACC
1 TACCACACCCATGACAGCAGTAATAGCATGCAACCACC
1902923 GATTTTAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.37, C:0.32, G:0.13, T:0.18
Consensus pattern (40 bp):
TACCACACCCATGACAGCAGTAATAGCATGCAACCACCAA
Found at i:1904971 original size:54 final size:53
Alignment explanation
Indices: 1904850--1904991 Score: 150
Period size: 54 Copynumber: 2.7 Consensus size: 53
1904840 TAATGCTGCC
* *
1904850 CTGTCAGTGGCCGGCACCAGAGCACAAGTTT---AAAAAAATTTGGTGCTGGA
1 CTGTCAATGGCCGGCACCAGAGTACAAGTTTCAAAAAAAAATTTGGTGCTGGA
* ** *
1904900 CTGTCAATAGCTAGCACCAGAGTACGAGTTTCAAAAATAAAATTTGGTGCTGG-
1 CTGTCAATGGCCGGCACCAGAGTACAAGTTTCAAAAA-AAAATTTGGTGCTGGA
* *
1904953 CTTGTGAATGGCCGGCACCAGACTACCAA-TTTCAAAAAA
1 C-TGTCAATGGCCGGCACCAGAGTA-CAAGTTTCAAAAAA
1904992 TTTAATGCAG
Statistics
Matches: 74, Mismatches: 12, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
50 25 0.34
53 5 0.07
54 42 0.57
55 2 0.03
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.23
Consensus pattern (53 bp):
CTGTCAATGGCCGGCACCAGAGTACAAGTTTCAAAAAAAAATTTGGTGCTGGA
Found at i:1908725 original size:25 final size:27
Alignment explanation
Indices: 1908683--1908732 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
1908673 ATTTTAAAAA
1908683 TTTATAAAAATTCC-AAAATTTATATT
1 TTTATAAAAATTCCAAAAATTTATATT
**
1908709 TTTA-AAAAATTTTAAAAATTTATA
1 TTTATAAAAATTCCAAAAATTTATA
1908733 AAATATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (27 bp):
TTTATAAAAATTCCAAAAATTTATATT
Found at i:1908727 original size:9 final size:9
Alignment explanation
Indices: 1908652--1908735 Score: 57
Period size: 9 Copynumber: 9.2 Consensus size: 9
1908642 TTTATAAAAT
*
1908652 AAATTTGAA
1 AAATTTTAA
*
1908661 ATAATTTTTA
1 A-AATTTTAA
1908671 AAATTTTAA
1 AAATTTTAA
1908680 AAATTTATAA
1 AAATTT-TAA
**
1908690 AAA-TTCCA
1 AAATTTTAA
1908698 AAA-TTT-A
1 AAATTTTAA
* *
1908705 TATTTTTAAA
1 AAATTTT-AA
1908715 AAATTTTAA
1 AAATTTTAA
1908724 AAATTTATAA
1 AAATTT-TAA
1908734 AA
1 AA
1908736 TATATATAAT
Statistics
Matches: 59, Mismatches: 10, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
7 2 0.03
8 9 0.15
9 24 0.41
10 24 0.41
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (9 bp):
AAATTTTAA
Found at i:1908736 original size:9 final size:9
Alignment explanation
Indices: 1908663--1908747 Score: 50
Period size: 9 Copynumber: 9.6 Consensus size: 9
1908653 AATTTGAAAT
*
1908663 AATTTTTAA
1 AATTTATAA
1908672 AATTT-TAAA
1 AATTTAT-AA
1908681 AATTTATAA
1 AATTTATAA
* **
1908690 AAATTCCAA
1 AATTTATAA
1908699 AATTTAT-A
1 AATTTATAA
** *
1908707 TTTTTAAAA
1 AATTTATAA
1908716 AATTT-TAAA
1 AATTTAT-AA
1908725 AATTTATAA
1 AATTTATAA
* *
1908734 AATATATAT
1 AATTTATAA
1908743 AATTT
1 AATTT
1908748 TTTTAAATAA
Statistics
Matches: 56, Mismatches: 15, Indels: 10
0.69 0.19 0.12
Matches are distributed among these distances:
8 6 0.11
9 48 0.86
10 2 0.04
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (9 bp):
AATTTATAA
Found at i:1908736 original size:35 final size:34
Alignment explanation
Indices: 1908674--1908742 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 34
1908664 ATTTTTAAAA
* *
1908674 TTTTAAAAATTTATAAAAATTCCAAAATTTATAT
1 TTTTAAAAATTTATAAAAATTACAAAATATATAT
*
1908708 TTTTAAAAAATTT-TAAAAATTTATAAAATATATAT
1 TTTT-AAAAATTTATAAAAA-TTACAAAATATATAT
1908743 AATTTTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
34 10 0.33
35 20 0.67
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (34 bp):
TTTTAAAAATTTATAAAAATTACAAAATATATAT
Found at i:1914872 original size:21 final size:21
Alignment explanation
Indices: 1914799--1914891 Score: 73
Period size: 22 Copynumber: 4.1 Consensus size: 21
1914789 ATGTCTTATA
*
1914799 TTTTTATATTTTACAATAATT
1 TTTTTATATTTTATAATAATT
* *
1914820 TTCTATACATTTT-TAATAATTTCCT
1 TT-TTTATATTTTATAATAA--T--T
1914845 ATTTTTATATTTTATAATAATT
1 -TTTTTATATTTTATAATAATT
1914867 TTTTTATGATTTTTATAAT-ATT
1 TTTTTAT-A-TTTTATAATAATT
1914889 TTT
1 TTT
1914892 AAGAAAAATT
Statistics
Matches: 58, Mismatches: 5, Indels: 17
0.73 0.06 0.21
Matches are distributed among these distances:
21 14 0.24
22 16 0.28
23 10 0.17
24 1 0.02
25 9 0.16
26 8 0.14
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.63
Consensus pattern (21 bp):
TTTTTATATTTTATAATAATT
Found at i:1914879 original size:47 final size:46
Alignment explanation
Indices: 1914797--1914885 Score: 126
Period size: 47 Copynumber: 1.9 Consensus size: 46
1914787 TTATGTCTTA
1914797 TATTTTTATATTTTACAATAATTTTCTATACATTTTTAATAATTTCC
1 TATTTTTATATTTTACAATAATTTTCTATACATTTTT-ATAATTTCC
* * *
1914844 TATTTTTATATTTTATAATAATTTT-TTTATGATTTTTATAAT
1 TATTTTTATATTTTACAATAATTTTCTATA-CATTTTTATAAT
1914886 ATTTTTAAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
46 8 0.21
47 30 0.79
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.62
Consensus pattern (46 bp):
TATTTTTATATTTTACAATAATTTTCTATACATTTTTATAATTTCC
Found at i:1914880 original size:23 final size:20
Alignment explanation
Indices: 1914846--1914987 Score: 72
Period size: 20 Copynumber: 6.9 Consensus size: 20
1914836 TAATTTCCTA
1914846 TTTTTATATTTTATAATAATT
1 TTTTTATATTTTATAAT-ATT
1914867 TTTTTATGATTTTTATAATATT
1 TTTTTAT-A-TTTTATAATATT
** * ** * *
1914889 TTTAAGAAAAATTCT-ATACT
1 TTT-TTATATTTTATAATATT
* *
1914909 TTTTAATAAATTTA-AATATT
1 TTTTTAT-ATTTTATAATATT
* * ** *
1914929 TTTCTATATTTTTTTCTATA
1 TTTTTATATTTTATAATATT
* *
1914949 TTTTTATATTTTCTAATATA
1 TTTTTATATTTTATAATATT
1914969 TTTTTATATTTTTATAATA
1 TTTTTATA-TTTTATAATA
1914988 ATTGGGTAGC
Statistics
Matches: 89, Mismatches: 25, Indels: 14
0.70 0.20 0.11
Matches are distributed among these distances:
19 5 0.06
20 47 0.53
21 19 0.21
22 8 0.09
23 10 0.11
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (20 bp):
TTTTTATATTTTATAATATT
Found at i:1914884 original size:20 final size:21
Alignment explanation
Indices: 1914796--1914892 Score: 67
Period size: 21 Copynumber: 4.4 Consensus size: 21
1914786 TTTATGTCTT
*
1914796 ATATTTTTATATTTTACAATA
1 ATATTTTTATATTTTATAATA
*
1914817 AT-TTTCTATACATTTT-TAATA
1 ATATTT-T-TATATTTTATAATA
1914838 ATTTCCTATTTTTATATTTTATAATA
1 A-----TATTTTTATATTTTATAATA
*
1914864 ATTTTTTTATGATTTT-T-ATA
1 ATATTTTTAT-ATTTTATAATA
1914884 ATATTTTTA
1 ATATTTTTA
1914893 AGAAAAATTC
Statistics
Matches: 61, Mismatches: 5, Indels: 21
0.70 0.06 0.24
Matches are distributed among these distances:
20 14 0.23
21 17 0.28
22 12 0.20
25 7 0.11
26 8 0.13
27 3 0.05
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (21 bp):
ATATTTTTATATTTTATAATA
Found at i:1914937 original size:10 final size:10
Alignment explanation
Indices: 1914924--1914981 Score: 52
Period size: 12 Copynumber: 5.8 Consensus size: 10
1914914 ATAAATTTAA
1914924 ATATTTTTCT
1 ATATTTTTCT
1914934 ATATTTTTTTCT
1 ATA--TTTTTCT
1914946 ATA-TTTT-T
1 ATATTTTTCT
1914954 ATA-TTTTCT
1 ATATTTTTCT
1914963 AATATATTTT-T
1 -ATAT-TTTTCT
1914974 ATATTTTT
1 ATATTTTT
1914982 ATAATAATTG
Statistics
Matches: 42, Mismatches: 0, Indels: 13
0.76 0.00 0.24
Matches are distributed among these distances:
8 8 0.19
9 9 0.21
10 10 0.24
11 1 0.02
12 14 0.33
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (10 bp):
ATATTTTTCT
Found at i:1914944 original size:12 final size:12
Alignment explanation
Indices: 1914927--1914953 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
1914917 AATTTAAATA
1914927 TTTTTCTATATT
1 TTTTTCTATATT
1914939 TTTTTCTATATT
1 TTTTTCTATATT
1914951 TTT
1 TTT
1914954 ATATTTTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTTCTATATT
Found at i:1914958 original size:20 final size:20
Alignment explanation
Indices: 1914923--1914987 Score: 78
Period size: 20 Copynumber: 3.2 Consensus size: 20
1914913 AATAAATTTA
1914923 AATAT-TTTTCTATATTTTTT
1 AATATATTTT-TATATTTTTT
** *
1914943 TCTATATTTTTATATTTTCT
1 AATATATTTTTATATTTTTT
1914963 AATATATTTTTATATTTTTAT
1 AATATATTTTTATATTTTT-T
1914984 AATA
1 AATA
1914988 ATTGGGTAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 28 0.76
21 9 0.24
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (20 bp):
AATATATTTTTATATTTTTT
Found at i:1917040 original size:23 final size:23
Alignment explanation
Indices: 1917005--1917078 Score: 60
Period size: 24 Copynumber: 3.0 Consensus size: 23
1916995 GAATACATTC
*
1917005 AAAT-AATTATAAATTAAAATTAT
1 AAATAAATT-TAAATTAAAATTAA
*
1917028 AAATAAATTTAAAATTAATTAATAAA
1 AAATAAATTT-AAATTAA--AATTAA
*
1917054 AAATATTAATTTAAGTTAAAATTAA
1 AAATA--AATTTAAATTAAAATTAA
1917079 TTTAATAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
23 5 0.12
24 11 0.27
25 5 0.12
26 9 0.22
27 6 0.15
28 5 0.12
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (23 bp):
AAATAAATTTAAATTAAAATTAA
Found at i:1917749 original size:29 final size:27
Alignment explanation
Indices: 1917717--1917793 Score: 75
Period size: 28 Copynumber: 2.7 Consensus size: 27
1917707 CAATTTAACT
1917717 TAAATTTTAAAATTTAAAAGGAGAAGA-AA
1 TAAATTTTAAAA--TAAAAGGA-AAGAGAA
* *
1917746 TAAATTTTTAAAATAAAAGTAAAGAGAC
1 TAAA-TTTTAAAATAAAAGGAAAGAGAA
1917774 TAAATTTTAAATATATAAAG
1 TAAATTTTAAA-ATA-AAAG
1917794 AGTATAGGGA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
27 11 0.26
28 15 0.36
29 8 0.19
30 8 0.19
ACGTcount: A:0.57, C:0.01, G:0.10, T:0.31
Consensus pattern (27 bp):
TAAATTTTAAAATAAAAGGAAAGAGAA
Found at i:1922843 original size:15 final size:15
Alignment explanation
Indices: 1922825--1922879 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
1922815 TAAACGAGAA
1922825 AAGTTAAAACCCAGT
1 AAGTTAAAACCCAGT
* * *
1922840 AAGTTAAGTAAACGAGAA
1 AAGTTAA--AACCCAG-T
1922858 AAGTTAAAACCCAGT
1 AAGTTAAAACCCAGT
1922873 AAGTTAA
1 AAGTTAA
1922880 GACACGTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
15 14 0.45
16 5 0.16
17 5 0.16
18 7 0.23
ACGTcount: A:0.51, C:0.13, G:0.16, T:0.20
Consensus pattern (15 bp):
AAGTTAAAACCCAGT
Found at i:1922851 original size:33 final size:33
Alignment explanation
Indices: 1922814--1922880 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
1922804 GTTATTTAGG
1922814 GTAAACGAGAAAAGTTAAAACCCAGTAAGTTAA
1 GTAAACGAGAAAAGTTAAAACCCAGTAAGTTAA
1922847 GTAAACGAGAAAAGTTAAAACCCAGTAAGTTAA
1 GTAAACGAGAAAAGTTAAAACCCAGTAAGTTAA
1922880 G
1 G
1922881 ACACGTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.51, C:0.12, G:0.19, T:0.18
Consensus pattern (33 bp):
GTAAACGAGAAAAGTTAAAACCCAGTAAGTTAA
Found at i:1922861 original size:18 final size:18
Alignment explanation
Indices: 1922814--1922864 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 18
1922804 GTTATTTAGG
1922814 GTAAACGAGAAAAGTTAA
1 GTAAACGAGAAAAGTTAA
* * *
1922832 --AACCCAG-TAAGTTAA
1 GTAAACGAGAAAAGTTAA
1922847 GTAAACGAGAAAAGTTAA
1 GTAAACGAGAAAAGTTAA
1922865 AACCCAGTAA
Statistics
Matches: 24, Mismatches: 6, Indels: 6
0.67 0.17 0.17
Matches are distributed among these distances:
15 7 0.29
16 5 0.21
17 5 0.21
18 7 0.29
ACGTcount: A:0.53, C:0.10, G:0.20, T:0.18
Consensus pattern (18 bp):
GTAAACGAGAAAAGTTAA
Found at i:1923430 original size:14 final size:16
Alignment explanation
Indices: 1923404--1923437 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
1923394 AAATAAAAAC
1923404 ATAAAATATGACAA-A
1 ATAAAATATGACAATA
1923419 ATAAAA-ATGACAATA
1 ATAAAATATGACAATA
1923434 ATAA
1 ATAA
1923438 TGAAAACAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.68, C:0.06, G:0.06, T:0.21
Consensus pattern (16 bp):
ATAAAATATGACAATA
Found at i:1923561 original size:3 final size:3
Alignment explanation
Indices: 1923447--1923545 Score: 81
Period size: 3 Copynumber: 32.7 Consensus size: 3
1923437 ATGAAAACAG
* * * * * * *
1923447 TAA TAA TAA TAA TAT TAA CAG TAG TAA TAG TAA TAG TAA AAA GTAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
* ** * *
1923493 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TGG CAA TAA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1923541 TAA TA
1 TAA TA
1923546 TGCTAAATAA
Statistics
Matches: 73, Mismatches: 22, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
3 71 0.97
4 2 0.03
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:1924540 original size:28 final size:28
Alignment explanation
Indices: 1924500--1924556 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
1924490 CTCGTTCTAG
* *
1924500 TCCATTGCGTCTTGTTGCTTGGATCCAC
1 TCCACTGCGTCTTGTTGCTTCGATCCAC
1924528 TCCACTGCGTCTTGTTGCTTCGATCCAC
1 TCCACTGCGTCTTGTTGCTTCGATCCAC
1924556 T
1 T
1924557 TCATGCAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.11, C:0.32, G:0.19, T:0.39
Consensus pattern (28 bp):
TCCACTGCGTCTTGTTGCTTCGATCCAC
Found at i:1924755 original size:55 final size:55
Alignment explanation
Indices: 1924684--1924795 Score: 188
Period size: 55 Copynumber: 2.0 Consensus size: 55
1924674 TGACTTTAAC
*
1924684 CTGCTCCACTGCAACTTCAGGAAGATAAGGTTTGTTTTGATCTACTCTACTGCAA
1 CTGCTCCACTGCAACTTCAGGAAGATAAGGTTTGTTTTGACCTACTCTACTGCAA
* * *
1924739 CTGCTCCACTGTAACTTCAGGGAGATAAGGTTTGTTTTGACCTGCTCTACTGCAA
1 CTGCTCCACTGCAACTTCAGGAAGATAAGGTTTGTTTTGACCTACTCTACTGCAA
1924794 CT
1 CT
1924796 TCAGAGAGAT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (55 bp):
CTGCTCCACTGCAACTTCAGGAAGATAAGGTTTGTTTTGACCTACTCTACTGCAA
Found at i:1924796 original size:41 final size:41
Alignment explanation
Indices: 1924739--1925127 Score: 161
Period size: 41 Copynumber: 8.7 Consensus size: 41
1924729 TCTACTGCAA
* *
1924739 CTGCTCCACTGTAACTTCAGGGAGATAAGGTTTGTTTTGAC
1 CTGCTCTACTGCAACTTCAGGGAGATAAGGTTTGTTTTGAC
* * *
1924780 CTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTTTATTTATAGC
1 CTGCTCTACTGCAACTTCAGGGAGATAAGGTTTG--T-TTT-GA-C
* * * *
1924826 TTCAATCGGTTCTACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCTG-T
1 --C--T--GCTCTACTGCAACTTCAGGGAGATAAGGTTTG---T-TT-TGAC
* * ** * **
1924877 CTGTTCCACTGCAACTTCAGGGAGATAAGACTAGTAACTTCAAC
1 CTGCTCTACTGCAACTTCAGGGAGATAAGGTTTGT---TTTGAC
* *
1924921 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTTTTGAT
1 CTGCTCTACTGCAACTTCAGGGAGATAAGGTTTGTTTTGAC
* * * * *
1924962 TTGCTCTACTGCAACTTTAGAGAGATAAGATCTGTTTATTTAT-AG
1 CTGCTCTACTGCAACTTCAGGGAGATAAG----GTTTGTTT-TGAC
* * * * **
1925007 CTTCAATCTATTCTATTGGAACTTCAGGGAGATAAGACTTGTGACTTCAAC
1 CTGC--TCTA--C---TGCAACTTCAGGGAGATAAG-GTT-TG-TTTTGAC
* * *
1925058 CTGCTCCATTGCAACTTCAGGGAGATAAGGTTTGTTTTGAT
1 CTGCTCTACTGCAACTTCAGGGAGATAAGGTTTGTTTTGAC
*
1925099 CTGCTCTACTGCAACTTCAGAGAGATAAG
1 CTGCTCTACTGCAACTTCAGGGAGATAAG
1925128 ATCTGTTTAT
Statistics
Matches: 262, Mismatches: 55, Indels: 62
0.69 0.15 0.16
Matches are distributed among these distances:
41 87 0.33
42 3 0.01
43 3 0.01
44 56 0.21
45 39 0.15
46 2 0.01
47 5 0.02
48 1 0.00
49 7 0.03
50 2 0.01
51 6 0.02
52 46 0.18
53 4 0.02
54 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (41 bp):
CTGCTCTACTGCAACTTCAGGGAGATAAGGTTTGTTTTGAC
Found at i:1924944 original size:44 final size:44
Alignment explanation
Indices: 1924825--1925241 Score: 243
Period size: 44 Copynumber: 9.2 Consensus size: 44
1924815 TTATTTATAG
* * * * * *
1924825 CTTCAATCGGTTCTACTGCAACTTCAGGGAAATAAGATTTGCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-TAA
** * *
1924870 CTTCTGTCTGTTCCACTGCAACTTCAGGGAGATAAGACTAGTAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAA
* **
1924914 CTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGT--
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAA
** * * * * *
1924956 -TTTGATTTGCTCTACTGCAACTTTAGAGAGATAAGATCTGTTTATTTATA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-C----T-TGTA-A
** * * * *
1925006 GCTTCAATCTATTCTATTGGAACTTCAGGGAGATAAGACTTGTGA
1 -CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAA
* * **
1925051 CTTCAACCTGCTCCATTGCAACTTCAGGGAGATAAGGTTTGT--
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAA
** * * *
1925093 -TTTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTTTATTCATA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-C---TT-GT-A-A
* * * * *
1925143 GCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAAATTTGCTAT
1 -CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-TAA
* * *
1925189 CTTCAATCTGCTCCACTGCAATTTCAGGGAGATAAGATTTGTGA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAA
1925233 CTTCAATCT
1 CTTCAATCT
1925242 ACTCTGCTGA
Statistics
Matches: 281, Mismatches: 68, Indels: 47
0.71 0.17 0.12
Matches are distributed among these distances:
41 57 0.20
44 82 0.29
45 74 0.26
46 4 0.01
47 4 0.01
48 3 0.01
51 1 0.00
52 56 0.20
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.34
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAA
Found at i:1924955 original size:182 final size:181
Alignment explanation
Indices: 1924739--1925086 Score: 527
Period size: 182 Copynumber: 1.9 Consensus size: 181
1924729 TCTACTGCAA
*
1924739 CTGCTCCACTGTAACTTCAGGGAGATAAGGTTTGTTTTGACCTGCTCTACTGCAACTTCAGAGAG
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTTTTGACCTGCTCTACTGCAACTTCAGAGAG
* * *
1924804 ATAAGATTTGTTTATTTATAGCTTCAATCGGTTCTACTGCAACTTCAGGGAAATAAGATTTGCT-
66 ATAAGATCTGTTTATTTATAGCTTCAATCGATTCTACTGCAACTTCAGGGAAATAAGACTTG-TG
*** *
1924868 ATCTTCTGTCTGTTCCACTGCAACTTCAGGGAGATAAGACTAGTAACTTCAAC
130 A-CTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGTAACTTCAAC
** *
1924921 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTTTTGATTTGCTCTACTGCAACTTTAGAGAG
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTTTTGACCTGCTCTACTGCAACTTCAGAGAG
* * * *
1924986 ATAAGATCTGTTTATTTATAGCTTCAATCTATTCTATTGGAACTTCAGGGAGATAAGACTTGTGA
66 ATAAGATCTGTTTATTTATAGCTTCAATCGATTCTACTGCAACTTCAGGGAAATAAGACTTGTGA
*
1925051 CTTCAACCTGCTCCATTGCAACTTCAGGGAGATAAG
131 CTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAG
1925087 GTTTGTTTTG
Statistics
Matches: 149, Mismatches: 16, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
181 32 0.21
182 117 0.79
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (181 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTTTTGACCTGCTCTACTGCAACTTCAGAGAG
ATAAGATCTGTTTATTTATAGCTTCAATCGATTCTACTGCAACTTCAGGGAAATAAGACTTGTGA
CTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGTAACTTCAAC
Found at i:1925065 original size:137 final size:136
Alignment explanation
Indices: 1924880--1925230 Score: 531
Period size: 137 Copynumber: 2.6 Consensus size: 136
1924870 CTTCTGTCTG
*
1924880 TTCCACTGCAACTTCAGGGAGATAAGACTAGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAG
1 TTCCACTGCAACTTCAGGGAGATAAGACTTGT-ACTTCAACCTGCTCCACTGCAACTTCAGGGAG
* * *
1924945 ATAAGGTTTGTTTTGATTTGCTCTACTGCAACTTTAGAGAGATAAGATCTGTTTATTTATAGCTT
65 ATAAGGTTTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTTTATTCATAGCTT
1925010 CAATCTA
130 CAATCTA
* * * *
1925017 TTCTATTGGAACTTCAGGGAGATAAGACTTGTGACTTCAACCTGCTCCATTGCAACTTCAGGGAG
1 TTCCACTGCAACTTCAGGGAGATAAGACTTGT-ACTTCAACCTGCTCCACTGCAACTTCAGGGAG
1925082 ATAAGGTTTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTTTATTCATAGCTT
65 ATAAGGTTTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTTTATTCATAGCTT
*
1925147 CAATCTG
130 CAATCTA
* * * * *
1925154 TTCCACTGCAACTTCAGGGAAATAAAATTTGCTATCTTCAATCTGCTCCACTGCAATTTCAGGGA
1 TTCCACTGCAACTTCAGGGAGATAAGACTTG-TA-CTTCAACCTGCTCCACTGCAACTTCAGGGA
*
1925219 GATAAGATTTGT
64 GATAAGGTTTGT
1925231 GACTTCAATC
Statistics
Matches: 192, Mismatches: 20, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
137 153 0.80
138 39 0.20
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.34
Consensus pattern (136 bp):
TTCCACTGCAACTTCAGGGAGATAAGACTTGTACTTCAACCTGCTCCACTGCAACTTCAGGGAGA
TAAGGTTTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTTTATTCATAGCTTC
AATCTA
Found at i:1925135 original size:41 final size:41
Alignment explanation
Indices: 1925058--1925135 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
1925048 TGACTTCAAC
* * * *
1925058 CTGCTCCATTGCAACTTCAGGGAGATAAGGTTTGTTTTGAT
1 CTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTTTTGAT
*
1925099 CTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTTT
1 CTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTTT
1925136 ATTCATAGCT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (41 bp):
CTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTTTTGAT
Found at i:1925458 original size:86 final size:86
Alignment explanation
Indices: 1925300--1926139 Score: 1009
Period size: 86 Copynumber: 9.7 Consensus size: 86
1925290 ACGCCATTTC
* * * * *
1925300 AGGGAGATGAGATTTGTAATTCCCAGCCTGTTACCCTATTGCTTAGGGGGTTAAGGCTTACCGTC
1 AGGGAGATAAGATCTGTAATT--CAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCGTC
**
1925365 TTTAATCTGCTCCACTACTGCTT
64 TTCGATCTGCTCCACTACTGCTT
* * * * **
1925388 AGGGAGATAAGATTTGTAATTCAGCCTGTTACCCTACTGTTTATGGGGTTAAGGCCCATCACCTT
1 AGGGAGATAAGATCTGTAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCGTCTT
* * *
1925453 CAATCTGTTCCCCTACTGCTT
66 CGATCTGCTCCACTACTGCTT
* * * *
1925474 AGGGTGATAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTATTGTCT
1 AGGGAGATAAGATCTGT-AATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCGTCT
* *
1925539 TCGATCCGCTACACTACTGCTT
65 TCGATCTGCTCCACTACTGCTT
** * * * **
1925561 AGGGAGATAAGATCTAAAATTTTCAACCTGTTACCATACTGCTTA-GGGGTTAAGGCCCATTATC
1 AGGGAGATAAGATCTGTAA--TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCGTC
*
1925625 TTCGATCTGCTCCACTATTGCTT
64 TTCGATCTGCTCCACTACTGCTT
* * * * **
1925648 AGAGAGACAAGATCTGAAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATTATC
1 AGGGAGATAAGATCTGTAA--TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCGTC
*
1925713 TTCGATCTGTTCCACTACTGCTT
64 TTCGATCTGCTCCACTACTGCTT
* * * * * * * * *
1925736 GGGGTGACAAGATCTATAATTCGGTCTGTTACCCTACTGCTTAGAGGGTTAAGGCTTATTGTCTT
1 AGGGAGATAAGATCTGTAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCGTCTT
*
1925801 CGATCGGCTCCACTACTGCTT
66 CGATCTGCTCCACTACTGCTT
** * * * * *
1925822 AGGGAGATAAGATCTAAAATTTCCAGCCTATTACACTACTTCTTAGGAGGTTAAGGCTCACCGTC
1 AGGGAGATAAGATCTGTAA-TT-CAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCGTC
*
1925887 TTTGATCTGCTCCACTACTGCTT
64 TTCGATCTGCTCCACTACTGCTT
* * * *
1925910 AGGGAGACAATATCTGTAATTCGGCCTGTTACCCTACTGCTTA-GGGGTTAAGGCTCACCGTCTT
1 AGGGAGATAAGATCTGTAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCGTCTT
1925974 CGATCTGCTCCACTACTGCTT
66 CGATCTGCTCCACTACTGCTT
1925995 AGGGAGATAAGATCTGTAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCGTCTT
1 AGGGAGATAAGATCTGTAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCGTCTT
*
1926060 CGATCTGCTCTACTACTGCTT
66 CGATCTGCTCCACTACTGCTT
* *
1926081 AGGGAGACAAGATCTGTAATTCTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTC
1 AGGGAGATAAGATCTGTAA-T-TCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTC
1926140 GTGAATTCAC
Statistics
Matches: 651, Mismatches: 92, Indels: 18
0.86 0.12 0.02
Matches are distributed among these distances:
85 80 0.12
86 221 0.34
87 151 0.23
88 199 0.31
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.33
Consensus pattern (86 bp):
AGGGAGATAAGATCTGTAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCGTCTT
CGATCTGCTCCACTACTGCTT
Found at i:1925723 original size:44 final size:44
Alignment explanation
Indices: 1925413--1925825 Score: 200
Period size: 44 Copynumber: 9.5 Consensus size: 44
1925403 GTAATTCAGC
* * * * * *
1925413 CTGTTACCCTACTGTTTATGGGGTTAAGGCCCATCACCTTCAAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCTATTATCTTCGAT
* * * ** * * * *
1925457 CTGTTCCCCTACTGCTTAGGGTGATAAGATCTGTAAAT-TTAG-C
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCTAT-TATCTTCGAT
* *
1925500 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTTATTGTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCTATTATCTTCGAT
* * * * * ** ** * * *
1925544 CCGCTACACTACTGCTTAGGGAGATAAGATCTAAAATTTTCAAC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCTATTATCTTCGAT
* *
1925588 CTGTTACCATACTGCTTA-GGGGTTAAGGCCCATTATCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCTATTATCTTCGAT
* * * * ** ** * * *
1925631 CTGCT-CCACTATTGCTTAGAGAGACAAGATCTGA-AATTTTC-AGC
1 CTGTTACC-CTACTGCTTAGGGGGTTAAGGCCT-ATTATCTTCGA-T
*
1925675 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATTATCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCTATTATCTTCGAT
** ** * *
1925719 CTGTT-CCACTACTGCTT-GGGGTGACAAGATCTA-TA-ATTCGGT
1 CTGTTACC-CTACTGCTTAGGGG-GTTAAGGCCTATTATCTTCGAT
* * *
1925761 CTGTTACCCTACTGCTTAGAGGGTTAAGGCTTATTGTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCTATTATCTTCGAT
* *
1925805 CGGCT-CCACTACTGCTTAGGG
1 CTGTTACC-CTACTGCTTAGGG
1925826 AGATAAGATC
Statistics
Matches: 255, Mismatches: 97, Indels: 34
0.66 0.25 0.09
Matches are distributed among these distances:
42 28 0.11
43 75 0.29
44 147 0.58
45 5 0.02
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.33
Consensus pattern (44 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGGCCTATTATCTTCGAT
Found at i:1925836 original size:174 final size:173
Alignment explanation
Indices: 1925300--1926139 Score: 1031
Period size: 174 Copynumber: 4.8 Consensus size: 173
1925290 ACGCCATTTC
* * * ** * * *
1925300 AGGGAGATGAGATTTGTAATTCCCAGCCTGTTACCCTATTGCTTAGGGGGTTAAGGCTTACCGTC
1 AGGGAGATAAGATCTGAAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCGTC
** * * *
1925365 TTTAATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGTAATTCAGCCTGTTACCCTACTGTTT
66 TTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTCAGCCTGTTACCCTACTGCTT
* * * * *
1925430 ATGGGGTTAAGGCCCATCACCTTCAATCTGTTCCCCTACTGCTT
131 A-GGGGTTAAGGCTCATCATCTTCGATCTGCTCCACTACTGCTT
* * *
1925474 AGGGTGATAAGATCTGTAAA-TTT-AGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTATTGT
1 AGGGAGATAAGATCTG-AAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCGT
* * * ** * *
1925537 CTTCGATCCGCTACACTACTGCTTAGGGAGATAAGATCTAAAATTTTCAACCTGTTACCATACTG
65 CTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAA--TTCAGCCTGTTACCCTACTG
* * *
1925602 CTTAGGGGTTAAGGCCCATTATCTTCGATCTGCTCCACTATTGCTT
128 CTTAGGGGTTAAGGCTCATCATCTTCGATCTGCTCCACTACTGCTT
* * * **
1925648 AGAGAGACAAGATCTGAAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATTATC
1 AGGGAGATAAGATCTGAAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCGTC
* * * * * *
1925713 TTCGATCTGTTCCACTACTGCTTGGGGTGACAAGATCTATAATTCGGTCTGTTACCCTACTGCTT
66 TTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTCAGCCTGTTACCCTACTGCTT
* ** *
1925778 AGAGGGTTAAGGCTTATTGTCTTCGATCGGCTCCACTACTGCTT
131 AG-GGGTTAAGGCTCATCATCTTCGATCTGCTCCACTACTGCTT
* * * * * * *
1925822 AGGGAGATAAGATCTAAAATTTCCAGCCTATTACACTACTTCTTAGGAGGTTAAGGCTCACCGTC
1 AGGGAGATAAGATCTGAAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCGTC
* * *
1925887 TTTGATCTGCTCCACTACTGCTTAGGGAGACAATATCTGTAATTCGGCCTGTTACCCTACTGCTT
66 TTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTCAGCCTGTTACCCTACTGCTT
* *
1925952 AGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCACTACTGCTT
131 AGGGGTTAAGGCTCATCATCTTCGATCTGCTCCACTACTGCTT
*
1925995 AGGGAGATAAGATCTGTAA--TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCGTC
1 AGGGAGATAAGATCTGAAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCGTC
* *
1926058 TTCGATCTGCTCTACTACTGCTTAGGGAGACAAGATCTGTAATTCTCAGCCTGTTACCCTACTAC
66 TTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAA-T-TCAGCCTGTTACCCTACTGC
1926123 TTAGGGGGTTAAGGCTC
129 TTA-GGGGTTAAGGCTC
1926140 GTGAATTCAC
Statistics
Matches: 574, Mismatches: 83, Indels: 18
0.85 0.12 0.03
Matches are distributed among these distances:
171 77 0.13
172 1 0.00
173 172 0.30
174 228 0.40
175 96 0.17
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.33
Consensus pattern (173 bp):
AGGGAGATAAGATCTGAAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCGTC
TTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTCAGCCTGTTACCCTACTGCTT
AGGGGTTAAGGCTCATCATCTTCGATCTGCTCCACTACTGCTT
Found at i:1925949 original size:42 final size:42
Alignment explanation
Indices: 1925901--1926040 Score: 126
Period size: 42 Copynumber: 3.3 Consensus size: 42
1925891 ATCTGCTCCA
*
1925901 CTACTGCTTAGGGAGACAATATCTGTAATTCGGCCTGTTACC
1 CTACTGCTTAGGGAGATAATATCTGTAATTCGGCCTGTTACC
* * * ** *
1925943 CTACTGCTTAGGG-GTTAAGGCTCA-CCGT-CTTCGATCTGCT-CC
1 CTACTGCTTAGGGAGATAA---T-ATCTGTAATTCGGCCTGTTACC
* *
1925985 ACTACTGCTTAGGGAGATAAGATCTGTAATTCAGCCTGTTACC
1 -CTACTGCTTAGGGAGATAATATCTGTAATTCGGCCTGTTACC
1926028 CTACTGCTTAGGG
1 CTACTGCTTAGGG
1926041 GGTTAAGGCT
Statistics
Matches: 74, Mismatches: 15, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
40 1 0.01
41 6 0.08
42 35 0.47
43 23 0.31
44 8 0.11
45 1 0.01
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.31
Consensus pattern (42 bp):
CTACTGCTTAGGGAGATAATATCTGTAATTCGGCCTGTTACC
Found at i:1926120 original size:44 final size:44
Alignment explanation
Indices: 1925986--1926128 Score: 120
Period size: 44 Copynumber: 3.3 Consensus size: 44
1925976 ATCTGCTCCA
1925986 CTACTGCTTAGGGAGATAAGATCTGTAA-T-TCAGCCTGTTACC
1 CTACTGCTTAGGGAGATAAGATCTGTAATTCTCAGCCTGTTACC
* * * * * *
1926028 CTACTGCTTAGGGGGTTAAGGCTCATCGT-CTTCGATCTG-CT-CTA--
1 CTACTGCTTAGGGAGATAA-GATC-T-GTAATTC--TCAGCCTGTTACC
*
1926072 CTACTGCTTAGGGAGACAAGATCTGTAATTCTCAGCCTGTTACC
1 CTACTGCTTAGGGAGATAAGATCTGTAATTCTCAGCCTGTTACC
*
1926116 CTACTACTTAGGG
1 CTACTGCTTAGGG
1926129 GGTTAAGGCT
Statistics
Matches: 75, Mismatches: 14, Indels: 22
0.68 0.13 0.20
Matches are distributed among these distances:
40 3 0.04
41 4 0.05
42 23 0.31
43 6 0.08
44 29 0.39
45 3 0.04
46 2 0.03
47 2 0.03
48 3 0.04
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.31
Consensus pattern (44 bp):
CTACTGCTTAGGGAGATAAGATCTGTAATTCTCAGCCTGTTACC
Found at i:1926292 original size:64 final size:64
Alignment explanation
Indices: 1926191--1926382 Score: 321
Period size: 64 Copynumber: 3.0 Consensus size: 64
1926181 TCATGTATCT
* * * * *
1926191 ATGCTTATGCCAAATAGTTAGGATGCTATAATCGAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTGTGTCAAATAATTAGGATGCTATGATCGAAATAAATCAAATGCTCCTAACTAGATGTG
1926255 ATGCTTGTGTCAAATAATTAGGATGCTATGATCGAAATAAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTGTGTCAAATAATTAGGATGCTATGATCGAAATAAATCAAATGCTCCTAACTAGATGTG
* *
1926319 ATGCTTGTGTAAAATAATTAGGATGCTATGATCAAAATAAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTGTGTCAAATAATTAGGATGCTATGATCGAAATAAATCAAATGCTCCTAACTAGATGTG
1926383 TTATGAATGA
Statistics
Matches: 121, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 121 1.00
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (64 bp):
ATGCTTGTGTCAAATAATTAGGATGCTATGATCGAAATAAATCAAATGCTCCTAACTAGATGTG
Found at i:1930182 original size:43 final size:43
Alignment explanation
Indices: 1930114--1930490 Score: 587
Period size: 43 Copynumber: 8.8 Consensus size: 43
1930104 TTTATTGGAA
* *
1930114 AAAAACGCCGC-AAAGGTCAGGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCATGGCTTTTAGCGGCGTTTGTGGG
* *
1930156 AAAAGCGCCGCTAAAGGTCATCGCTTTTAGCTGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCATGGCTTTTAGCGGCGTTTGTGGG
*
1930199 AAAAGCGCCGCTAAAGGTCAGGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCATGGCTTTTAGCGGCGTTTGTGGG
* * *
1930242 AAAAGCGCCGCTAAAGGTCATTGCTTTTAGCGGCGTTTATGGA
1 AAAAGCGCCGCTAAAGGTCATGGCTTTTAGCGGCGTTTGTGGG
* *
1930285 AAAAGCGCCGCTAAAGGTCATTGCTTTTAGCGGCGTTTCTGGG
1 AAAAGCGCCGCTAAAGGTCATGGCTTTTAGCGGCGTTTGTGGG
* *
1930328 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGT
1 AAAAGCGCCGCTAAAGGTCATGGCTTTTAGCGGCGTTTGTGGG
*
1930371 AAAAGCGCCGCTAAAGGTCATTGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCATGGCTTTTAGCGGCGTTTGTGGG
*
1930414 AAAAGCGCCGCTAAAGGTCA-GGCTTTTAGCGGCGTTTGTGCG
1 AAAAGCGCCGCTAAAGGTCATGGCTTTTAGCGGCGTTTGTGGG
* * *
1930456 TAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCG
1 AAAAGCGCCGCTAAAGGTCATGGCTTTTAGCGGCG
1930491 CTTTTTTTAC
Statistics
Matches: 309, Mismatches: 24, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
42 48 0.16
43 261 0.84
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCATGGCTTTTAGCGGCGTTTGTGGG
Found at i:1930600 original size:31 final size:31
Alignment explanation
Indices: 1930565--1930631 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
1930555 CTTCCTACAT
* *
1930565 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * * *
1930596 TAAAATGCAGCCAAAAACAGCAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
1930627 TAAAA
1 TAAAA
1930632 AATACAACAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.60, C:0.18, G:0.04, T:0.18
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:1930912 original size:21 final size:21
Alignment explanation
Indices: 1930888--1930933 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
1930878 GCTCGTGCCT
*
1930888 CTGCCTCTCTCGCTGCAGCCG
1 CTGCCTCCCTCGCTGCAGCCG
* * *
1930909 CTGCCTCCCTCTCTGCTGCCT
1 CTGCCTCCCTCGCTGCAGCCG
1930930 CTGC
1 CTGC
1930934 TCTAAGTTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.50, G:0.20, T:0.28
Consensus pattern (21 bp):
CTGCCTCCCTCGCTGCAGCCG
Found at i:1936524 original size:9 final size:9
Alignment explanation
Indices: 1936510--1936673 Score: 123
Period size: 9 Copynumber: 17.6 Consensus size: 9
1936500 GACTATAGAT
1936510 TTATGTAAG
1 TTATGTAAG
1936519 TTATGTAAG
1 TTATGTAAG
* *
1936528 TTATATAAA
1 TTATGTAAG
*
1936537 TTATGATATAAAA
1 TTATG---T-AAG
*
1936550 TATATTTAAG
1 T-TATGTAAG
1936560 TATTATGTAAG
1 --TTATGTAAG
1936571 TTATGTAAG
1 TTATGTAAG
* *
1936580 TTATAT-AT
1 TTATGTAAG
*
1936588 TTATCTAAG
1 TTATGTAAG
*
1936597 TTATGTATG
1 TTATGTAAG
*
1936606 TTATATAAG
1 TTATGTAAG
*
1936615 TTATGTATG
1 TTATGTAAG
*
1936624 TTATATAAG
1 TTATGTAAG
1936633 TTATGTAAG
1 TTATGTAAG
* *
1936642 TTATATATG
1 TTATGTAAG
*
1936651 TTATATAAG
1 TTATGTAAG
*
1936660 TTATGTAAA
1 TTATGTAAG
1936669 TTATG
1 TTATG
1936674 ATATCAAATA
Statistics
Matches: 123, Mismatches: 24, Indels: 16
0.75 0.15 0.10
Matches are distributed among these distances:
8 6 0.05
9 98 0.80
10 2 0.02
11 8 0.07
12 2 0.02
13 4 0.03
14 3 0.02
ACGTcount: A:0.38, C:0.01, G:0.14, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:1938579 original size:46 final size:46
Alignment explanation
Indices: 1938519--1938872 Score: 498
Period size: 46 Copynumber: 8.0 Consensus size: 46
1938509 TTTGACATGA
* * * * * * *
1938519 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
*** * *
1938565 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
*
1938611 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1938657 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1938703 TGCCATGGTATCTTTCAACCATGG---T---C----T-TA-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1938737 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1938783 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
*
1938829 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAG
1938873 AGAGCACACT
Statistics
Matches: 281, Mismatches: 15, Indels: 24
0.88 0.05 0.08
Matches are distributed among these distances:
34 29 0.10
35 2 0.01
36 1 0.00
37 1 0.00
40 2 0.01
43 1 0.00
44 1 0.00
45 2 0.01
46 242 0.86
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
Found at i:1938738 original size:34 final size:34
Alignment explanation
Indices: 1938698--1938767 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
1938688 CATTTTATAT
1938698 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
1938732 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
1938766 CA
1 CA
1938768 CATTTTATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.34
Consensus pattern (34 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
Found at i:1938785 original size:80 final size:85
Alignment explanation
Indices: 1938648--1938872 Score: 343
Period size: 80 Copynumber: 2.6 Consensus size: 85
1938638 TACACATTTC
1938648 ATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTA
1 ATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTA
1938713 TCTTTCAACCATGG-T-C-T
66 TCTTTCAACCATGGTTACTT
1938730 -TA-CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTA
1 ATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTA
1938793 TCTTTCAACCATGGTCTTACACATTTT
66 TCTTTCAACCATGG--TT--AC---TT
*
1938820 ATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 ATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAG
1938873 AGAGCACACT
Statistics
Matches: 130, Mismatches: 1, Indels: 14
0.90 0.01 0.10
Matches are distributed among these distances:
80 75 0.58
81 2 0.02
83 1 0.01
86 1 0.01
90 1 0.01
91 2 0.02
92 48 0.37
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (85 bp):
ATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTA
TCTTTCAACCATGGTTACTT
Found at i:1938834 original size:126 final size:126
Alignment explanation
Indices: 1938609--1938859 Score: 493
Period size: 126 Copynumber: 2.0 Consensus size: 126
1938599 TTCATATCAC
1938609 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
1938674 ACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAG
66 ACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAG
*
1938735 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
1938800 ACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACA
66 ACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACA
1938860 CATTTCATAT
Statistics
Matches: 124, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
126 124 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (126 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
ACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAG
Found at i:1938849 original size:172 final size:172
Alignment explanation
Indices: 1938563--1938872 Score: 557
Period size: 172 Copynumber: 1.8 Consensus size: 172
1938553 TTTCTGTCAT
***
1938563 GTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCA
1938628 ACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
66 ACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
*
1938693 TATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAG
131 CATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAG
* *
1938735 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCA
*
1938800 ACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
66 ACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
1938865 CATATCAG
131 CATATCAG
1938873 AGAGCACACT
Statistics
Matches: 131, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
172 131 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (172 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCA
ACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
CATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAG
Found at i:1941022 original size:11 final size:11
Alignment explanation
Indices: 1941006--1941057 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
1940996 TATACTAAAT
1941006 AAATAATAATA
1 AAATAATAATA
*
1941017 AAATAAT-ATT
1 AAATAATAATA
* *
1941027 AAATATCTCATA
1 AAATA-ATAATA
*
1941039 AAATATTAATA
1 AAATAATAATA
1941050 AAATAATA
1 AAATAATA
1941058 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:1943949 original size:46 final size:45
Alignment explanation
Indices: 1943889--1944237 Score: 431
Period size: 46 Copynumber: 8.0 Consensus size: 45
1943879 TTTGACATGA
* * * * * *
1943889 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
*** *
1943935 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
1943981 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
*
1944027 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
1944073 TGCCATGGTATCTTTCAACCATGG---T---C---T-TA-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
*
1944107 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
1944153 TGCCATGGTATCTTTCAACCATGGTCTTACACA--T-T-TCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
1944194 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAG
1944238 AGAGCACACT
Statistics
Matches: 272, Mismatches: 12, Indels: 38
0.84 0.04 0.12
Matches are distributed among these distances:
34 29 0.11
35 2 0.01
36 1 0.00
37 1 0.00
40 2 0.01
41 39 0.14
42 1 0.00
43 3 0.01
44 1 0.00
45 7 0.03
46 183 0.67
47 3 0.01
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (45 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
Found at i:1944046 original size:92 final size:88
Alignment explanation
Indices: 1943933--1944237 Score: 457
Period size: 80 Copynumber: 3.5 Consensus size: 88
1943923 TTTCTGTCAT
*** *
1943933 GTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
1943998 ACCATGGTCTTACACATTTCATATCAG
66 ACCATGGTCTTACACA--T--TATCAG
*
1944025 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
1944090 ACCATGG---T---C-TTA-CAG
66 ACCATGGTCTTACACATTATCAG
*
1944105 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
1944170 ACCATGGTCTTACACATT-TCAG
66 ACCATGGTCTTACACATTATCAG
1944192 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1944238 AGAGCACACT
Statistics
Matches: 199, Mismatches: 6, Indels: 21
0.88 0.03 0.09
Matches are distributed among these distances:
80 75 0.38
81 2 0.01
83 2 0.01
86 2 0.01
87 50 0.25
89 1 0.01
92 67 0.34
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (88 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
ACCATGGTCTTACACATTATCAG
Found at i:1944108 original size:34 final size:34
Alignment explanation
Indices: 1944068--1944137 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
1944058 CATTTTATAT
1944068 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
1944102 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
1944136 CA
1 CA
1944138 CATTTTATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.34
Consensus pattern (34 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
Found at i:1946388 original size:11 final size:11
Alignment explanation
Indices: 1946372--1946423 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
1946362 TATACTAAAT
1946372 AAATAATAATA
1 AAATAATAATA
*
1946383 AAATAAT-ATT
1 AAATAATAATA
* *
1946393 AAATATCTCATA
1 AAATA-ATAATA
*
1946405 AAATATTAATA
1 AAATAATAATA
1946416 AAATAATA
1 AAATAATA
1946424 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:1947250 original size:14 final size:14
Alignment explanation
Indices: 1947231--1947262 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
1947221 CAATATAATT
1947231 TTACTTCATATATA
1 TTACTTCATATATA
*
1947245 TTACTTCATATATT
1 TTACTTCATATATA
1947259 TTAC
1 TTAC
1947263 AAGAATATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.16, G:0.00, T:0.53
Consensus pattern (14 bp):
TTACTTCATATATA
Found at i:1950607 original size:28 final size:28
Alignment explanation
Indices: 1950575--1950632 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
1950565 AATCAAAACT
*
1950575 CTAT-ACCTTAAACCATTAAACTATATCC
1 CTATAACCTTAAACC-CTAAACTATATCC
* *
1950603 CTATAACCTTAATCCCTAAAGTATATCC
1 CTATAACCTTAAACCCTAAACTATATCC
1950631 CT
1 CT
1950633 TAAACCCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.36, C:0.29, G:0.02, T:0.33
Consensus pattern (28 bp):
CTATAACCTTAAACCCTAAACTATATCC
Found at i:1950633 original size:21 final size:21
Alignment explanation
Indices: 1950609--1950652 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1950599 ATCCCTATAA
* *
1950609 CCTTAATCCCTAAAGTATATC
1 CCTTAAACCCTAAACTATATC
1950630 CCTTAAACCCTAAACTATATC
1 CCTTAAACCCTAAACTATATC
1950651 CC
1 CC
1950653 CTAACCATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.34, C:0.34, G:0.02, T:0.30
Consensus pattern (21 bp):
CCTTAAACCCTAAACTATATC
Found at i:1950923 original size:21 final size:21
Alignment explanation
Indices: 1950882--1950924 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
1950872 ATTAACCCCT
*
1950882 AACCCCTAACCCTTAATCATA
1 AACCCCTAACCCTTAACCATA
1950903 AACCCC-AACCCTTAAACCATA
1 AACCCCTAACCCTT-AACCATA
1950924 A
1 A
1950925 TATATAAACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.42, C:0.40, G:0.00, T:0.19
Consensus pattern (21 bp):
AACCCCTAACCCTTAACCATA
Found at i:1951055 original size:41 final size:41
Alignment explanation
Indices: 1950998--1951208 Score: 291
Period size: 41 Copynumber: 5.1 Consensus size: 41
1950988 AACCCTAAAC
1950998 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
*
1951039 TTTTTAGCGGCGTTTTACCAAAAGCGCCACTAATGCTCTTA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
**
1951080 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCCGA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
* * *
1951121 TTTTTAACGGCGCTTTACCAAAAACGCCGCTAATGCTCTTA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
* *** *
1951162 TTCTTAGCGGCGCTTTTGGTAAAA-CGCCGCTATTGCTC-TA
1 TTTTTAGCGGCG-TTTTACCAAAAGCGCCGCTAATGCTCTTA
1951202 TGTTTTA
1 T-TTTTA
1951209 CAATTTTTTT
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
40 3 0.02
41 141 0.93
42 7 0.05
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (41 bp):
TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
Found at i:1951247 original size:12 final size:12
Alignment explanation
Indices: 1951232--1951257 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1951222 GTTTTTTGAT
1951232 AAAACGCCGCTA
1 AAAACGCCGCTA
1951244 AAAACGCCGCTA
1 AAAACGCCGCTA
1951256 AA
1 AA
1951258 GACATGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:1952823 original size:14 final size:16
Alignment explanation
Indices: 1952797--1952830 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
1952787 AAATAAAAAC
1952797 ATAAAATATGACAA-A
1 ATAAAATATGACAATA
1952812 ATAAAA-ATGACAATA
1 ATAAAATATGACAATA
1952827 ATAA
1 ATAA
1952831 TGAAAACAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.68, C:0.06, G:0.06, T:0.21
Consensus pattern (16 bp):
ATAAAATATGACAATA
Found at i:1952846 original size:3 final size:3
Alignment explanation
Indices: 1952840--1953317 Score: 280
Period size: 3 Copynumber: 157.7 Consensus size: 3
1952830 ATGAAAACAG
* * * * *
1952840 TAA TAA TAA TAA TAC TAA TAG TAG TAA TAA TAA TAG TAA AAA GTAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
* ** * * **
1952886 TAA TAA TAA TAA TAA TAA TAG TAA TGG CAA TAA TAG TAA TAA T-A TGC
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * * *
1952933 TAAA TAA TAA TAA GAA AAA CAA TAG TAA TAG TAA TTA CAA -AA GTGA
1 T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
* * *
1952979 TAA TAA TAA TAA -AA TAGGA TGA TAA TAA TAA TAC TAA TGAA -AC TAA
1 TAA TAA TAA TAA TAA TA--A TAA TAA TAA TAA TAA TAA T-AA TAA TAA
* * * * * * * * *
1953025 AAA TAG TAG TAA TAG TAA TAA TAA TAA GACCG TAA TAA AAA GAA AAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA--A TAA TAA TAA TAA TAA
*
1953072 GAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
1953118 TAA TAA TAA T-A TAT TAA TAA GAA -AA TAA TAA T-C TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
1953163 TAA TAA TAA TAA TAGA AAA T-A TAA TAAA TAA TAA TAGA -AA TGGAA
1 TAA TAA TAA TAA TA-A TAA TAA TAA T-AA TAA TAA TA-A TAA T--AA
* * * ** ** *
1953208 TAA -AA CATA TAA TTA TAA TAG TGG TGG TAA TAA -AA GTAA TAA TAC
1 TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA
**
1953253 TAA TAA TAGCA GCA -AA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TA--A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1953298 TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
1953318 TTGATGATAA
Statistics
Matches: 371, Mismatches: 73, Indels: 62
0.73 0.14 0.12
Matches are distributed among these distances:
2 22 0.06
3 323 0.87
4 19 0.05
5 7 0.02
ACGTcount: A:0.60, C:0.03, G:0.08, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:1955913 original size:32 final size:32
Alignment explanation
Indices: 1955872--1955933 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
1955862 TTAAAGATTC
1955872 GTTGGTTTTGATAGACGAAGAAATGAATTTGT
1 GTTGGTTTTGATAGACGAAGAAATGAATTTGT
1955904 GTTGGTTTTGATAGACGAAGAAATGAATTT
1 GTTGGTTTTGATAGACGAAGAAATGAATTT
1955934 ATTTTTAGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.32, C:0.03, G:0.27, T:0.37
Consensus pattern (32 bp):
GTTGGTTTTGATAGACGAAGAAATGAATTTGT
Found at i:1963382 original size:27 final size:27
Alignment explanation
Indices: 1963344--1963397 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
1963334 TTGCTTTGTA
*
1963344 ACACTGTTAAATATACATAGCAGAAAT
1 ACACTGTTAAATATACACAGCAGAAAT
1963371 ACACTGTTAAATATACACAGCAGAAAT
1 ACACTGTTAAATATACACAGCAGAAAT
1963398 CATAATTAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.48, C:0.17, G:0.11, T:0.24
Consensus pattern (27 bp):
ACACTGTTAAATATACACAGCAGAAAT
Found at i:1991845 original size:133 final size:133
Alignment explanation
Indices: 1991607--1991988 Score: 656
Period size: 133 Copynumber: 2.9 Consensus size: 133
1991597 TAGGTACATA
* * * * *
1991607 AGTTAATCATGGCTATTTTTTAAATCATGTGTGTTATACTTATTCTATTATTTGTTTTGATAAGC
1 AGTTAAGCATGACTATTTTGTAAATCATGTGTGTTATACTTATTCTGTTATCTGTTTTGATAAGC
* *
1991672 TATTTGATTCAGTTATGTAATATGAACATATGATATTATGATTTTGCATGTCCATGTGCATTGAG
66 TATTTGATTCAATTATGTAATATGAACATATGATATTATGATTCTGCATGTCCATGTGCATTGAG
1991737 GTG
131 GTG
*
1991740 AGTTAAGCATGACTATTTTGTAAATCATGTGCGTTATACTTATTCTGTTATCTGTTTTGATAAGC
1 AGTTAAGCATGACTATTTTGTAAATCATGTGTGTTATACTTATTCTGTTATCTGTTTTGATAAGC
* *
1991805 TATTTGATTCAATTATGTAATATGAACCTATGATATTATGATTCTGCATGTCCATGTGCATTGGG
66 TATTTGATTCAATTATGTAATATGAACATATGATATTATGATTCTGCATGTCCATGTGCATTGAG
1991870 GTG
131 GTG
1991873 AGTTAAGCATGACTATTTTGTAAATCATGTGTGTTATACTTATTCTGTTATCTGTTTTGATAAGC
1 AGTTAAGCATGACTATTTTGTAAATCATGTGTGTTATACTTATTCTGTTATCTGTTTTGATAAGC
* *
1991938 TATTTGATTCAATTATATAATATGAACATATGATATTATGATCCTGCATGT
66 TATTTGATTCAATTATGTAATATGAACATATGATATTATGATTCTGCATGT
1991989 GCATTGGGCT
Statistics
Matches: 235, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
133 235 1.00
ACGTcount: A:0.28, C:0.10, G:0.17, T:0.45
Consensus pattern (133 bp):
AGTTAAGCATGACTATTTTGTAAATCATGTGTGTTATACTTATTCTGTTATCTGTTTTGATAAGC
TATTTGATTCAATTATGTAATATGAACATATGATATTATGATTCTGCATGTCCATGTGCATTGAG
GTG
Found at i:1995036 original size:192 final size:192
Alignment explanation
Indices: 1994709--1995274 Score: 970
Period size: 192 Copynumber: 2.9 Consensus size: 192
1994699 GATAAATGTG
* * *
1994709 GCTTAATGGAGTTTCCTAAGCCTAGGCCTCCCCATGCTTCTTGCAACTCTCTCTCCCTTGCTTCT
1 GCTTAATGGAGTTTCCTAAGCTTAAGCCGCCCCATGCTTCTTGCAACTCTCTCTCCCTTGCTTCT
*
1994774 CTACGAGATAGAGAGAATCTAATCTGCTCACTTGGTTGCTCAGAAGTAGCCATCTTCTCTTTCTC
66 CTACGAGATACAGAGAATCTAATCTGCTCACTTGGTTGCTCAGAAGTAGCCATCTTCTCTTTCTC
*
1994839 TAATTTTGATTTGTGTTTAACCAAAATTTGGTCCAGACTACCCCGATCATCCGCCACCTGTT
131 TAATTTTGATTTGTGTTTAACCAAAATTTGGTCCAGACTACCCTGATCATCCGCCACCTGTT
* *
1994901 GCTTAATGGAGTTTCCTAAGCTTAAACCGCCCCATGCTTCTTGCAACTCTCTCTCCCTTGCTTGT
1 GCTTAATGGAGTTTCCTAAGCTTAAGCCGCCCCATGCTTCTTGCAACTCTCTCTCCCTTGCTTCT
*
1994966 CTACGAGATACAGAGAATCTAATCTGCTCACTTGGTTGCTCAGAAGTAGCCATCTTCTCTTTTTC
66 CTACGAGATACAGAGAATCTAATCTGCTCACTTGGTTGCTCAGAAGTAGCCATCTTCTCTTTCTC
*
1995031 TAATTTTGATTTGTGTTTAACTAAAATTTGGTCCAGACTACCCTGATCATCCGCCACCTGTT
131 TAATTTTGATTTGTGTTTAACCAAAATTTGGTCCAGACTACCCTGATCATCCGCCACCTGTT
*
1995093 GCTTAATGGAGTTTCCCAAGCTTAAGCCGCCCCATGCTTCTTGCAACTCTCTCTCCCTTGCTTCT
1 GCTTAATGGAGTTTCCTAAGCTTAAGCCGCCCCATGCTTCTTGCAACTCTCTCTCCCTTGCTTCT
* * * * * * *
1995158 CTACGAGATACAGATAATCTAATTTGCTCGCTTGCTTGCTCAGAACTTGTCATCTTCTCTTTCTC
66 CTACGAGATACAGAGAATCTAATCTGCTCACTTGGTTGCTCAGAAGTAGCCATCTTCTCTTTCTC
*
1995223 TAATTTTGATTTGTGTTTAACCAAAATTTGATCCAGACTACCCTGATCATCC
131 TAATTTTGATTTGTGTTTAACCAAAATTTGGTCCAGACTACCCTGATCATCC
1995275 ACTTGTGGCG
Statistics
Matches: 352, Mismatches: 22, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
192 352 1.00
ACGTcount: A:0.21, C:0.28, G:0.15, T:0.36
Consensus pattern (192 bp):
GCTTAATGGAGTTTCCTAAGCTTAAGCCGCCCCATGCTTCTTGCAACTCTCTCTCCCTTGCTTCT
CTACGAGATACAGAGAATCTAATCTGCTCACTTGGTTGCTCAGAAGTAGCCATCTTCTCTTTCTC
TAATTTTGATTTGTGTTTAACCAAAATTTGGTCCAGACTACCCTGATCATCCGCCACCTGTT
Found at i:1999825 original size:17 final size:15
Alignment explanation
Indices: 1999803--1999872 Score: 61
Period size: 17 Copynumber: 4.3 Consensus size: 15
1999793 TCTAACATGG
1999803 TTTCTTTTATTCTTTTA
1 TTTCTTTT-TT-TTTTA
1999820 TTTC-TTTTTTTTTA
1 TTTCTTTTTTTTTTA
* *
1999834 TTTCTTTTCATTTTTC
1 TTTCTTTT-TTTTTTA
1999850 TCTTCTTTTTTCTTTTCA
1 T-TTCTTTTTT-TTTT-A
1999868 TTTCT
1 TTTCT
1999873 CTCTATTTCT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
14 9 0.20
15 5 0.11
16 10 0.23
17 19 0.43
18 1 0.02
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTCTTTTTTTTTTA
Found at i:1999834 original size:14 final size:14
Alignment explanation
Indices: 1999815--1999860 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
1999805 TCTTTTATTC
1999815 TTTTATTTCTTTTT
1 TTTTATTTCTTTTT
1999829 TTTTATTTCTTTTCAT
1 TTTTATTTCTTTT--T
*
1999845 TTTTCTCTTCTTTTT
1 TTTTAT-TTCTTTTT
1999860 T
1 T
1999861 CTTTTCATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 13 0.46
15 2 0.07
16 6 0.21
17 7 0.25
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTATTTCTTTTT
Found at i:1999849 original size:12 final size:12
Alignment explanation
Indices: 1999834--1999893 Score: 59
Period size: 12 Copynumber: 4.8 Consensus size: 12
1999824 TTTTTTTTTA
1999834 TTTCTTTTCATT
1 TTTCTTTTCATT
* *
1999846 TTTCTCTTCTTT
1 TTTCTTTTCATT
1999858 TTTCTTTTCATT
1 TTTCTTTTCATT
1999870 TCTCTCTATTTC-TGT
1 T-T-TCT-TTTCAT-T
1999885 TTTCTTTTC
1 TTTCTTTTC
1999894 CTTCTTCTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
12 25 0.62
13 4 0.10
14 5 0.12
15 6 0.15
ACGTcount: A:0.05, C:0.22, G:0.02, T:0.72
Consensus pattern (12 bp):
TTTCTTTTCATT
Found at i:1999861 original size:24 final size:24
Alignment explanation
Indices: 1999804--1999876 Score: 80
Period size: 24 Copynumber: 3.0 Consensus size: 24
1999794 CTAACATGGT
1999804 TTCTTTTATTCTTTT-ATTTCTT-T-
1 TTCTTTT-TTCTTTTCATTT-TTCTC
*
1999827 TTTTTTATTTCTTTTCATTTTTCTC
1 TTCTTT-TTTCTTTTCATTTTTCTC
*
1999852 TTCTTTTTTCTTTTCATTTCTCTC
1 TTCTTTTTTCTTTTCATTTTTCTC
1999876 T
1 T
1999877 ATTTCTGTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
23 14 0.33
24 24 0.56
25 5 0.12
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.75
Consensus pattern (24 bp):
TTCTTTTTTCTTTTCATTTTTCTC
Found at i:1999874 original size:22 final size:22
Alignment explanation
Indices: 1999804--1999899 Score: 72
Period size: 22 Copynumber: 4.2 Consensus size: 22
1999794 CTAACATGGT
*
1999804 TTCTTTTATTCTTTT-ATTTCTTT
1 TTCTTTT-TTCTTTTCATTTC-TC
*
1999827 TTTTTTATTTCTTTTCATTTTTCTC
1 TTCTTT-TTTCTTTTCA--TTTCTC
1999852 TTCTTTTTTCTTTTCATTTCTC
1 TTCTTTTTTCTTTTCATTTCTC
* * *
1999874 -TCTATTTCTGTTTTCTTTTC-C
1 TTCT-TTTTTCTTTTCATTTCTC
1999895 TTCTT
1 TTCTT
1999900 CTAACCCTAG
Statistics
Matches: 61, Mismatches: 6, Indels: 14
0.75 0.07 0.17
Matches are distributed among these distances:
21 5 0.08
22 22 0.36
23 12 0.20
24 12 0.20
25 6 0.10
26 4 0.07
ACGTcount: A:0.06, C:0.19, G:0.01, T:0.74
Consensus pattern (22 bp):
TTCTTTTTTCTTTTCATTTCTC
Found at i:2000349 original size:14 final size:14
Alignment explanation
Indices: 2000330--2000356 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2000320 GTTTGAGGCT
2000330 TTTTTTTTATTTGC
1 TTTTTTTTATTTGC
2000344 TTTTTTTTATTTG
1 TTTTTTTTATTTG
2000357 TGGTTTGATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.04, G:0.07, T:0.81
Consensus pattern (14 bp):
TTTTTTTTATTTGC
Found at i:2001709 original size:19 final size:20
Alignment explanation
Indices: 2001672--2001709 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
2001662 TTCTAAATTT
* *
2001672 TTTTTTACAATTTATAATAA
1 TTTTTTACAAATTAGAATAA
2001692 TTTTTTA-AAATTAGAATA
1 TTTTTTACAAATTAGAATA
2001710 GGGGAATTCG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (20 bp):
TTTTTTACAAATTAGAATAA
Found at i:2007888 original size:20 final size:23
Alignment explanation
Indices: 2007849--2007894 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 23
2007839 TCATATCAAC
*
2007849 AAATAATTTAAAAATTATAAA-A
1 AAATAATTTAAAAATAATAAATA
2007871 AAAT-ATTT-AAAATAATAAATA
1 AAATAATTTAAAAATAATAAATA
2007892 AAA
1 AAA
2007895 ATTATAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 10 0.45
21 8 0.36
22 4 0.18
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (23 bp):
AAATAATTTAAAAATAATAAATA
Found at i:2009689 original size:17 final size:17
Alignment explanation
Indices: 2009667--2009720 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
2009657 TAAATTAGTT
*
2009667 TAAATTGTGAGTAAAAA
1 TAAATTGTGAATAAAAA
* * **
2009684 TAAATT-TAAATTAATT
1 TAAATTGTGAATAAAAA
2009700 TAAATTGTGAATAAAAA
1 TAAATTGTGAATAAAAA
2009717 TAAA
1 TAAA
2009721 ATTAAATAGG
Statistics
Matches: 27, Mismatches: 9, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
16 11 0.41
17 16 0.59
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (17 bp):
TAAATTGTGAATAAAAA
Found at i:2009696 original size:33 final size:33
Alignment explanation
Indices: 2009657--2009727 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
2009647 AATATATATA
* * *
2009657 TAAATTAGTTTAAATTGTGAGTAAAAATAAATT
1 TAAATTAATTTAAATTGTGAATAAAAATAAAAT
2009690 TAAATTAATTTAAATTGTGAATAAAAATAAAAT
1 TAAATTAATTTAAATTGTGAATAAAAATAAAAT
2009723 TAAAT
1 TAAAT
2009728 AGGTAAATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (33 bp):
TAAATTAATTTAAATTGTGAATAAAAATAAAAT
Found at i:2018720 original size:39 final size:39
Alignment explanation
Indices: 2018662--2018738 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
2018652 TAAGGTTTCA
*
2018662 GTTTAGCTCTAATGAGCTTCAGTTAGCCTTCGGGCTTCT
1 GTTTAGCACTAATGAGCTTCAGTTAGCCTTCGGGCTTCT
* * *
2018701 GTTTAGCACTTATGTGCTTCAGTTAGCCTTCTGGCTTC
1 GTTTAGCACTAATGAGCTTCAGTTAGCCTTCGGGCTTC
2018739 AGATCACGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.14, C:0.23, G:0.22, T:0.40
Consensus pattern (39 bp):
GTTTAGCACTAATGAGCTTCAGTTAGCCTTCGGGCTTCT
Found at i:2018739 original size:18 final size:18
Alignment explanation
Indices: 2018677--2018740 Score: 74
Period size: 18 Copynumber: 3.4 Consensus size: 18
2018667 GCTCTAATGA
*
2018677 GCTTCAGTTAGCCTTCGG
1 GCTTCAGTTAGCCTTCTG
* *
2018695 GCTTCTGTTTAGCACTTATG
1 GCTTCAG-TTAGC-CTTCTG
2018715 TGCTTCAGTTAGCCTTCTG
1 -GCTTCAGTTAGCCTTCTG
2018734 GCTTCAG
1 GCTTCAG
2018741 ATCACGATGT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
18 13 0.34
19 10 0.26
20 9 0.24
21 6 0.16
ACGTcount: A:0.12, C:0.25, G:0.23, T:0.39
Consensus pattern (18 bp):
GCTTCAGTTAGCCTTCTG
Found at i:2034036 original size:24 final size:24
Alignment explanation
Indices: 2034009--2034070 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 24
2033999 GGAGTGCAAC
*
2034009 GGAGACGAAGATGAAGTCGATGGT
1 GGAGACGAAGATGAAGACGATGGT
* * *
2034033 GGAGACAAAAATAAAGACGATGGT
1 GGAGACGAAGATGAAGACGATGGT
* *
2034057 AGAGATGAAGATGA
1 GGAGACGAAGATGA
2034071 CTACAATGAT
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.35, T:0.15
Consensus pattern (24 bp):
GGAGACGAAGATGAAGACGATGGT
Found at i:2036197 original size:14 final size:15
Alignment explanation
Indices: 2036173--2036231 Score: 52
Period size: 14 Copynumber: 4.0 Consensus size: 15
2036163 TAATTAATAT
2036173 TTAATATATTATTAA
1 TTAATATATTATTAA
2036188 TTAA-ATATTATTATA
1 TTAATATATTATTA-A
* **
2036203 TATAAT-TTTTATTTT
1 T-TAATATATTATTAA
2036218 TTAATATA-TATTAA
1 TTAATATATTATTAA
2036232 ATAGAGTTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 9
0.69 0.12 0.18
Matches are distributed among these distances:
14 17 0.50
15 8 0.24
16 9 0.26
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTAATATATTATTAA
Found at i:2036392 original size:31 final size:31
Alignment explanation
Indices: 2036344--2036414 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
2036334 TAATATAATG
*
2036344 TTTGATACTTATATTTGA-TTTGAATGTTTAA
1 TTTGATACTTATATTTGACTTT-AATGTTCAA
* *
2036375 TTTGGTACTTA-AGTTTGACTTTAGTGTTCAA
1 TTTGATACTTATA-TTTGACTTTAATGTTCAA
2036406 TTTGATACT
1 TTTGATACT
2036415 CCAAATTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
30 1 0.03
31 30 0.88
32 3 0.09
ACGTcount: A:0.25, C:0.07, G:0.15, T:0.52
Consensus pattern (31 bp):
TTTGATACTTATATTTGACTTTAATGTTCAA
Found at i:2041667 original size:19 final size:19
Alignment explanation
Indices: 2041630--2041667 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
2041620 CCCCTTGGCT
*
2041630 GTGTGTGCTCCAAGCCAAG
1 GTGTGTGCTCCAAGACAAG
2041649 GTGTGTGCCTCCAA-ACAAG
1 GTGTGTG-CTCCAAGACAAG
2041668 CTTCCCGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.24, C:0.26, G:0.29, T:0.21
Consensus pattern (19 bp):
GTGTGTGCTCCAAGACAAG
Found at i:2044686 original size:20 final size:20
Alignment explanation
Indices: 2044663--2044701 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2044653 TTTTTAATAG
2044663 TAAAAAAAATATTTTTTTAA
1 TAAAAAAAATATTTTTTTAA
** *
2044683 TAAAATGATTATTTTTTTA
1 TAAAAAAAATATTTTTTTA
2044702 TCTAACGTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (20 bp):
TAAAAAAAATATTTTTTTAA
Found at i:2045734 original size:5 final size:5
Alignment explanation
Indices: 2045720--2045763 Score: 56
Period size: 5 Copynumber: 9.2 Consensus size: 5
2045710 TTTTTAATGT
* *
2045720 TTATA ATATA TTATA TTATA TTATG TTATA TT-TA -TATA TTATA T
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA T
2045764 AATTTATAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
3 1 0.03
4 4 0.12
5 28 0.85
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (5 bp):
TTATA
Found at i:2045810 original size:18 final size:18
Alignment explanation
Indices: 2045755--2045811 Score: 52
Period size: 16 Copynumber: 3.4 Consensus size: 18
2045745 TTATATTTAT
*
2045755 ATATTAT-ATAATTTATA
1 ATATTATAATAATATATA
* *
2045772 ATA-CATAA-AAAATA-A
1 ATATTATAATAATATATA
2045787 AT-TTATAATAATATATA
1 ATATTATAATAATATATA
2045804 ATATTATA
1 ATATTATA
2045812 TTGTAAATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 9
0.68 0.11 0.20
Matches are distributed among these distances:
15 7 0.23
16 11 0.37
17 7 0.23
18 5 0.17
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (18 bp):
ATATTATAATAATATATA
Found at i:2045905 original size:33 final size:30
Alignment explanation
Indices: 2045851--2045912 Score: 79
Period size: 33 Copynumber: 2.0 Consensus size: 30
2045841 CTATATAAGA
*
2045851 TAAAAATATATAAATTATTAAATATTAAAT
1 TAAAAATATATAAATTATTAAAAATTAAAT
*
2045881 TAAAAATAATATAAATATTGTTAAAAATTAAA
1 TAAAAAT-ATAT-AA-ATTATTAAAAATTAAA
2045913 AAAATTGCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 7 0.26
31 4 0.15
32 2 0.07
33 14 0.52
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (30 bp):
TAAAAATATATAAATTATTAAAAATTAAAT
Found at i:2049598 original size:50 final size:50
Alignment explanation
Indices: 2049523--2049699 Score: 291
Period size: 50 Copynumber: 3.5 Consensus size: 50
2049513 CCATGGCAAC
*
2049523 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGA
1 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGA
2049573 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGA
1 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGA
* *
2049623 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGA
* **
2049673 CAAGTGAAAAGTGGTAGCTTCGGCTAC
1 -AAGTGATAAGTAATAGCTTCGGCTAC
2049700 CTGATCAGTG
Statistics
Matches: 120, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
50 97 0.81
51 23 0.19
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGA
Found at i:2049713 original size:31 final size:31
Alignment explanation
Indices: 2049675--2049885 Score: 289
Period size: 31 Copynumber: 6.8 Consensus size: 31
2049665 ACAAATGACA
2049675 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
2049706 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
2049737 AGTGAAAAGTGGTAGCTTCTGCTACTTGATA
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
2049768 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
2049799 AGTGAAAAATGGTAGCTCCGACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
2049830 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
2049861 AAT-AAATAGTTGTAGCTTCAGCTAC
1 AGTGAAA-AGTGGTAGCTTCGGCTAC
2049886 AAGTGACTAG
Statistics
Matches: 163, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
30 3 0.02
31 160 0.98
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:2050011 original size:49 final size:48
Alignment explanation
Indices: 2049907--2050032 Score: 166
Period size: 49 Copynumber: 2.6 Consensus size: 48
2049897 GATTTCCGTA
* * * * * *
2049907 TAAGACCATATCTGAGATATGACATC-A-GTGAGATATGTGATTCGTG
1 TAAGACCATAGCTGGGCTATGACATCGATATGTGATATGTGATTCGAG
*
2049953 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGAG
1 TAAGACCATAGCTGGGCTATGACATCGATATGTGATATGTGATT-CGAG
2050002 TAAGACCATAGCTGGGCTATGACATCGATAT
1 TAAGACCATAGCTGGGCTATGACATCGATAT
2050033 ATGAAGATGT
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
46 22 0.32
47 1 0.01
48 13 0.19
49 33 0.48
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (48 bp):
TAAGACCATAGCTGGGCTATGACATCGATATGTGATATGTGATTCGAG
Found at i:2051165 original size:46 final size:46
Alignment explanation
Indices: 2051089--2051273 Score: 208
Period size: 46 Copynumber: 4.0 Consensus size: 46
2051079 TAGGGCTTAA
* * * *
2051089 TATTCTTGTATTCTCGAGTCCGCAACATATGCAGGAGCTCAAAACC
1 TATTCATGTATTCTCAAGTCTGCAACATATGCAGGAGCTCAGAACC
** ** * * *
2051135 TAAACATGTATTCTTGAGTCTGCAATATATGTAGGAGCTTAGAACC
1 TATTCATGTATTCTCAAGTCTGCAACATATGCAGGAGCTCAGAACC
* * * * *
2051181 TATTCTTCTATTCTCAAGTTTGCAACATATGCAGGAACTCGGAACC
1 TATTCATGTATTCTCAAGTCTGCAACATATGCAGGAGCTCAGAACC
* *
2051227 TATTCATGTATTCTCAAGTTTGCAACATATGCAGGAGCTTAGAACC
1 TATTCATGTATTCTCAAGTCTGCAACATATGCAGGAGCTCAGAACC
2051273 T
1 T
2051274 GGGCAAAACT
Statistics
Matches: 113, Mismatches: 26, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
46 113 1.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (46 bp):
TATTCATGTATTCTCAAGTCTGCAACATATGCAGGAGCTCAGAACC
Found at i:2051251 original size:92 final size:92
Alignment explanation
Indices: 2051089--2051273 Score: 244
Period size: 92 Copynumber: 2.0 Consensus size: 92
2051079 TAGGGCTTAA
* * * **
2051089 TATTCTTGTATTCTCGAGTCCGCAACATATGCAGGAGCTCAAAACCTAAACATGTATTCTTGAGT
1 TATTCTTCTATTCTCAAGTCCGCAACATATGCAGGAACTCAAAACCTAAACATGTATTCTCAAGT
* *
2051154 CTGCAATATATGTAGGAGCTTAGAACC
66 CTGCAACATATGCAGGAGCTTAGAACC
** ** **
2051181 TATTCTTCTATTCTCAAGTTTGCAACATATGCAGGAACTCGGAACCTATTCATGTATTCTCAAGT
1 TATTCTTCTATTCTCAAGTCCGCAACATATGCAGGAACTCAAAACCTAAACATGTATTCTCAAGT
*
2051246 TTGCAACATATGCAGGAGCTTAGAACC
66 CTGCAACATATGCAGGAGCTTAGAACC
2051273 T
1 T
2051274 GGGCAAAACT
Statistics
Matches: 79, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
92 79 1.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (92 bp):
TATTCTTCTATTCTCAAGTCCGCAACATATGCAGGAACTCAAAACCTAAACATGTATTCTCAAGT
CTGCAACATATGCAGGAGCTTAGAACC
Found at i:2052592 original size:24 final size:24
Alignment explanation
Indices: 2052565--2052615 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
2052555 TCACCTACAT
2052565 CAACACTTAAATACATTTACAAGC
1 CAACACTTAAATACATTTACAAGC
2052589 CAACACTTAAATACATTTACAAGC
1 CAACACTTAAATACATTTACAAGC
2052613 CAA
1 CAA
2052616 TATAAGACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.47, C:0.25, G:0.04, T:0.24
Consensus pattern (24 bp):
CAACACTTAAATACATTTACAAGC
Found at i:2057621 original size:33 final size:33
Alignment explanation
Indices: 2057579--2057700 Score: 201
Period size: 33 Copynumber: 3.7 Consensus size: 33
2057569 CTCTATTTCA
2057579 GGTTGCTGGACAAGAGCTGGAATGTGAGTGTTT
1 GGTTGCTGGACAAGAGCTGGAATGTGAGTGTTT
**
2057612 GGTTGCTGGACGGGAGCTGGAATGTGAGTGTTT
1 GGTTGCTGGACAAGAGCTGGAATGTGAGTGTTT
*
2057645 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
1 GGTTGCTGGACAAGAGCTGGAATGTGAGTGTTT
2057678 GGTTGCTGGAC-AGTAGCTGGAAT
1 GGTTGCTGGACAAG-AGCTGGAAT
2057701 ATCAAGAAGA
Statistics
Matches: 84, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
32 1 0.01
33 83 0.99
ACGTcount: A:0.19, C:0.10, G:0.42, T:0.30
Consensus pattern (33 bp):
GGTTGCTGGACAAGAGCTGGAATGTGAGTGTTT
Found at i:2065968 original size:3 final size:3
Alignment explanation
Indices: 2065960--2066004 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
2065950 TTTAATTTAG
2065960 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT A-T ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
2066005 GAAATAAGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 4 0.10
3 36 0.90
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:2066552 original size:3 final size:3
Alignment explanation
Indices: 2066536--2066588 Score: 88
Period size: 3 Copynumber: 17.7 Consensus size: 3
2066526 TATTTATTAA
* *
2066536 ATT ATT GTT GTT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2066584 ATT AT
1 ATT AT
2066589 CAAATAAATT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:2066944 original size:17 final size:15
Alignment explanation
Indices: 2066924--2066957 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 15
2066914 CAGGGAGAAA
2066924 GAAAGAAAGGAAAAAGG
1 GAAAGAAA-G-AAAAGG
2066941 GAAAGAAAGAAAAGG
1 GAAAGAAAGAAAAGG
2066956 GA
1 GA
2066958 GAAATAGGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 1 0.06
17 8 0.47
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (15 bp):
GAAAGAAAGAAAAGG
Found at i:2066961 original size:17 final size:18
Alignment explanation
Indices: 2066923--2066961 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
2066913 ACAGGGAGAA
2066923 AGAAAGAAAGGAAAAAGG
1 AGAAAGAAAGGAAAAAGG
*
2066941 -GAAAGAAA-GAAAAGGG
1 AGAAAGAAAGGAAAAAGG
2066957 AGAAA
1 AGAAA
2066962 TAGGGATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (18 bp):
AGAAAGAAAGGAAAAAGG
Found at i:2081390 original size:13 final size:13
Alignment explanation
Indices: 2081372--2081422 Score: 61
Period size: 13 Copynumber: 4.0 Consensus size: 13
2081362 CAACCCAAAT
*
2081372 ACCACCCCGCTAA
1 ACCACCCCACTAA
2081385 ACCACCCCACTAA
1 ACCACCCCACTAA
2081398 ACCGA--CCACTAA
1 ACC-ACCCCACTAA
*
2081410 ATCACCCCACTAA
1 ACCACCCCACTAA
2081423 CTCCATCACC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
11 1 0.03
12 9 0.27
13 22 0.67
14 1 0.03
ACGTcount: A:0.37, C:0.49, G:0.04, T:0.10
Consensus pattern (13 bp):
ACCACCCCACTAA
Found at i:2081842 original size:3 final size:3
Alignment explanation
Indices: 2081836--2082046 Score: 119
Period size: 3 Copynumber: 68.7 Consensus size: 3
2081826 ATAATAATAA
* *
2081836 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TTT TAC TACT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT
* * * * * *
2081881 TAC TAT TAT T-C TAT ATAC TAT CACT GAT T-T CT-T TTT TAT TAT TAT
1 TAT TAT TAT TAT TAT -TAT TAT TA-T TAT TAT -TAT TAT TAT TAT TAT
* * * * * * *
2081926 TAG TAGA AACG TAA TAG TAT TTT TAT TAT T-T TAT TAT TAT T-T TCACCT
1 TAT TA-T TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-A--T
* * *
2081974 TTT TAT TAC TAT TAT TAT TAACC TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT T-A-T TAT TAT TAT TAT TAT TAT TAT TAT
2082021 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
2082047 ATATAGTGTT
Statistics
Matches: 162, Mismatches: 31, Indels: 30
0.73 0.14 0.13
Matches are distributed among these distances:
2 9 0.06
3 141 0.87
4 9 0.06
5 1 0.01
6 2 0.01
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:2082196 original size:3 final size:3
Alignment explanation
Indices: 2082188--2082226 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
2082178 AATCAATTTA
2082188 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2082227 ATCTTTTCCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2082303 original size:22 final size:20
Alignment explanation
Indices: 2082245--2082304 Score: 54
Period size: 22 Copynumber: 2.9 Consensus size: 20
2082235 CCTTTTTGTA
2082245 TTTATTTA-TTC-ATTTTAT
1 TTTATTTATTTCAATTTTAT
2082263 TTTCATTT-TTTACAAATTTCTAT
1 TTT-ATTTATTT-C-AATTT-TAT
2082286 TTTATTTATTTCAGATTTT
1 TTTATTTATTTCA-ATTTT
2082305 TACATAATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 13
0.72 0.00 0.28
Matches are distributed among these distances:
18 3 0.09
19 6 0.18
20 1 0.03
21 2 0.06
22 13 0.38
23 9 0.26
ACGTcount: A:0.23, C:0.08, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTATTTATTTCAATTTTAT
Found at i:2083933 original size:21 final size:21
Alignment explanation
Indices: 2083909--2083979 Score: 74
Period size: 21 Copynumber: 3.5 Consensus size: 21
2083899 AAAAATATTT
*
2083909 TTTATTTTAAAAAATTAATAA
1 TTTAATTTAAAAAATTAATAA
** **
2083930 TTTAATTT-AAGTA-TAATTT
1 TTTAATTTAAAAAATTAATAA
*
2083949 TTTATTTTAAAAAATTAATAA
1 TTTAATTTAAAAAATTAATAA
2083970 TTTAATTTAA
1 TTTAATTTAA
2083980 GTATTTTTAA
Statistics
Matches: 37, Mismatches: 11, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
19 11 0.30
20 6 0.16
21 20 0.54
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (21 bp):
TTTAATTTAAAAAATTAATAA
Found at i:2083950 original size:40 final size:40
Alignment explanation
Indices: 2083905--2083983 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
2083895 GGAAAAAAAT
2083905 ATTTTTTATTTTAAAAAATTAATAATTTAATTTAAGTATA
1 ATTTTTTATTTTAAAAAATTAATAATTTAATTTAAGTATA
2083945 ATTTTTTATTTTAAAAAATTAATAATTTAATTTAAGTAT
1 ATTTTTTATTTTAAAAAATTAATAATTTAATTTAAGTAT
2083984 TTTTAATACA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (40 bp):
ATTTTTTATTTTAAAAAATTAATAATTTAATTTAAGTATA
Found at i:2083997 original size:36 final size:39
Alignment explanation
Indices: 2083917--2084000 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 39
2083907 TTTTTATTTT
* **
2083917 AAAAAATTAATAATTTAATTTAAGTATAATTTTTTATTTT
1 AAAAAATTAATAATTTAATTTAAG-ATAATTTTTTAATAC
2083957 AAAAAATTAATAATTTAATTTAAG-T-A-TTTTTAATAC
1 AAAAAATTAATAATTTAATTTAAGATAATTTTTTAATAC
2083993 AAAAAATT
1 AAAAAATT
2084001 TAATTTTATC
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
36 15 0.37
37 1 0.02
38 1 0.02
40 24 0.59
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.46
Consensus pattern (39 bp):
AAAAAATTAATAATTTAATTTAAGATAATTTTTTAATAC
Found at i:2085736 original size:29 final size:29
Alignment explanation
Indices: 2085703--2085762 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
2085693 AAGGATTCAA
*
2085703 AGATGGCATTATGGATATGAAGTTTATGT
1 AGATGGCATTATGGATATAAAGTTTATGT
** *
2085732 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGCATTATGGATATAAAGTTTATGT
2085761 AG
1 AG
2085763 GTTTGGTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.30, C:0.02, G:0.28, T:0.40
Consensus pattern (29 bp):
AGATGGCATTATGGATATAAAGTTTATGT
Found at i:2086783 original size:14 final size:14
Alignment explanation
Indices: 2086741--2086785 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
2086731 TTAAAGAAGC
2086741 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
2086755 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
2086768 AACTCATTTAATTA
1 AACTCATTAAATTA
2086782 AACT
1 AACT
2086786 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:2089370 original size:133 final size:132
Alignment explanation
Indices: 2089146--2089590 Score: 576
Period size: 133 Copynumber: 3.4 Consensus size: 132
2089136 GATAAGGCCG
** * * ** *
2089146 GTGGCTAAAATCTATTTCATAGCCGATACATGGAGATAAGACT-ATCATTCCTGATCTGCTCCAT
1 GTGGCTAAAATCTGCTCCATAGCCGATACATAGAGATAAGACTCGCCATTTCTGATCTGCTCCAT
*
2089210 AGCTGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTACAACTTCAGGAAGATAAGA
66 AGCCGATACATGGAGATAAGATCTGTAATTTT-AGTCTGCTTCCTACAACTTCAGGAAGATAAGA
2089275 CTT
130 CTT
* *
2089278 GTGGCTAAAATCTGCTCCATAGCCGATACGTAGAGATAAGACTCGCCATTTCTGATTTGCTCCAT
1 GTGGCTAAAATCTGCTCCATAGCCGATACATAGAGATAAGACTCGCCATTTCTGATCTGCTCCAT
* *
2089343 AGCCGATACATGGAGATAAGATATGTAATTTTTAGTCTGCTTCCTGCAACTTCAGGAAGATAAGA
66 AGCCGATACATGGAGATAAGATCTGTAA-TTTTAGTCTGCTTCCTACAACTTCAGGAAGATAAGA
2089408 CTT
130 CTT
* *
2089411 GTGGATAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTCTGATCTGCTCCAT
1 GTGGCTAAAATCTGCTCCATAGCCGATACATAGAGATAAGACTCGCCATTTCTGATCTGCTCCAT
* * * * *
2089476 AGCCGATACATAGAGATAAGATCTGGT-A-TTTAGCCTGCTCCACTCCTAC-TCAGTGAAGATAA
66 AGCCGATACATGGAGATAAGATCT-GTAATTTTAGTCTGCTTC-CTACAACTTCAG-GAAGATAA
*
2089538 GGC-T
128 GACTT
* * * * *
2089542 GATAGCTGAAATCTGCTCCATTGCCGATACATAAAGATAAGACTTGCCA
1 G-TGGCTAAAATCTGCTCCATAGCCGATACATAGAGATAAGACTCGCCA
2089591 AAATTTGATC
Statistics
Matches: 277, Mismatches: 30, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
131 17 0.06
132 93 0.34
133 161 0.58
134 6 0.02
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (132 bp):
GTGGCTAAAATCTGCTCCATAGCCGATACATAGAGATAAGACTCGCCATTTCTGATCTGCTCCAT
AGCCGATACATGGAGATAAGATCTGTAATTTTAGTCTGCTTCCTACAACTTCAGGAAGATAAGAC
TT
Found at i:2089474 original size:45 final size:45
Alignment explanation
Indices: 2089287--2089496 Score: 166
Period size: 45 Copynumber: 4.7 Consensus size: 45
2089277 TGTGGCTAAA
* *
2089287 ATCTGCTCCATAGCCGATACGTAGAGATAAGACTCGCCATTTCTG
1 ATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTCTG
* * ** *
2089332 ATTTGCTCCATAGCCGATACATGGAGATAAGA-TATGTAATTT-TT
1 ATCTGCTCCATAGCCGATACATGGAGATAAGACT-CGCCATTTCTG
* * * ** ***
2089376 AGTCTGCTTCC-T-G-CAACTTCA-GGAAGATAAGACTTGTGGA--TAAA
1 A-TCTGC-TCCATAGCCGA-TACATGG-AGATAAGACTCG-CCATTTCTG
2089420 ATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTCTG
1 ATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTCTG
*
2089465 ATCTGCTCCATAGCCGATACATAGAGATAAGA
1 ATCTGCTCCATAGCCGATACATGGAGATAAGA
2089497 TCTGGTATTT
Statistics
Matches: 128, Mismatches: 23, Indels: 28
0.72 0.13 0.16
Matches are distributed among these distances:
42 3 0.02
43 12 0.09
44 33 0.26
45 77 0.60
46 3 0.02
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.28
Consensus pattern (45 bp):
ATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTCTG
Found at i:2089560 original size:44 final size:44
Alignment explanation
Indices: 2089510--2089852 Score: 234
Period size: 44 Copynumber: 7.7 Consensus size: 44
2089500 GGTATTTAGC
* * *
2089510 CTGCTCCACTCCTACTCAGTGAAGATAAGGCTGATAGCTGAAAT
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGTAGTTGAAAT
* * * * ** *
2089554 CTGCTCCATTGCC-GATACA-TAAAGATAAGACTTGCCAAAATTTG--AT
1 CTGCTCCACT-CCTGCT-CAGTGAAGATAAGGC-TG---GTAGTTGAAAT
* * * **
2089600 CTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTT-TAGC
1 CTGCTCCACTCCTGCTCAGTGAAGATAAG-GCTGGTA-GTTGAAAT
* *
2089645 CTGCTCTACTCCTGCTCAGTGAAGATAAGGCTGGTGGTTGAAAT
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGTAGTTGAAAT
* ** *
2089689 CTGCTCCACTCCTGCTCAGTGAAGATAAGACTCGCCAAAATTTG--AT
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGGCT-G---GTAGTTGAAAT
* * * * * **
2089735 CTGCTTCACTCTTGCTCAGTGAAGATAAGATCGGGTATGTT-TAGC
1 CTGCTCCACTCCTGCTCAGTGAAGATAAG-GCTGGTA-GTTGAAAT
* *
2089780 CTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAAT
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGTAGTTGAAAT
2089824 CTGCTCCACTCCTGCTCAGTGAAGATAAG
1 CTGCTCCACTCCTGCTCAGTGAAGATAAG
2089853 ACTCGCCAAA
Statistics
Matches: 228, Mismatches: 49, Indels: 44
0.71 0.15 0.14
Matches are distributed among these distances:
43 7 0.03
44 94 0.41
45 65 0.29
46 53 0.23
47 2 0.01
48 7 0.03
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (44 bp):
CTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGTAGTTGAAAT
Found at i:2089625 original size:46 final size:45
Alignment explanation
Indices: 2089575--2089899 Score: 229
Period size: 46 Copynumber: 7.2 Consensus size: 45
2089565 CCGATACATA
2089575 AAGATAAGACTTGCCAAAATTTGATCTGCTTCACTCCTGCTCAGTG
1 AAGATAAGACTTGCCAAAATTT-ATCTGCTTCACTCCTGCTCAGTG
** ** *
2089621 AAGATAAGA-TCTG-GTATGTTTAGCCTGC-TCTACTCCTGCTCAGTG
1 AAGATAAGACT-TGCCAAAATTTA-TCTGCTTC-ACTCCTGCTCAGTG
* **** *
2089666 AAGATAAGGCTGGTGGTTGAA---ATCTGCTCCACTCCTGCTCAGTG
1 AAGATAAGACT--TGCCAAAATTTATCTGCTTCACTCCTGCTCAGTG
* *
2089710 AAGATAAGACTCGCCAAAATTTGATCTGCTTCACTCTTGCTCAGTG
1 AAGATAAGACTTGCCAAAATTT-ATCTGCTTCACTCCTGCTCAGTG
* *** ** * *
2089756 AAGATAAGA-TCGGGTATGTTTAGCCTGCTCCACTCCTGCTCAGTG
1 AAGATAAGACTTGCCAAAATTTA-TCTGCTTCACTCCTGCTCAGTG
* * ** *
2089801 AAGATAAGGCTGGTGGCTGAA---ATCTGCTCCACTCCTGCTCAGTG
1 AAGATAAGACT--TGCCAAAATTTATCTGCTTCACTCCTGCTCAGTG
* *
2089845 AAGATAAGACTCGCCAAAATTTAATCTGCTTCACTCCTGCTTAGTG
1 AAGATAAGACTTGCCAAAATTT-ATCTGCTTCACTCCTGCTCAGTG
2089891 AAGATAAGA
1 AAGATAAGA
2089900 TCAGGTATGT
Statistics
Matches: 217, Mismatches: 43, Indels: 38
0.73 0.14 0.13
Matches are distributed among these distances:
42 7 0.03
44 63 0.29
45 68 0.31
46 73 0.34
47 2 0.01
48 4 0.02
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (45 bp):
AAGATAAGACTTGCCAAAATTTATCTGCTTCACTCCTGCTCAGTG
Found at i:2089673 original size:135 final size:135
Alignment explanation
Indices: 2089489--2089910 Score: 672
Period size: 135 Copynumber: 3.1 Consensus size: 135
2089479 CGATACATAG
* * *
2089489 AGATAAGATCTGGTA--TTTAGCCTGCTCCACTCCTACTCAGTGAAGATAAGGCTGATAGCTGAA
1 AGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAA
* * * *
2089552 ATCTGCTCCATTGCC-GATACA-TAAAGATAAGACTTGCCAAAATTTGATCTGCTTCACTCCTGC
66 ATCTGCTCCACT-CCTGCT-CAGTGAAGATAAGACTCGCCAAAATTTGATCTGCTTCACTCCTGC
2089615 TCAGTGA
129 TCAGTGA
* *
2089622 AGATAAGATCTGGTATGTTTAGCCTGCTCTACTCCTGCTCAGTGAAGATAAGGCTGGTGGTTGAA
1 AGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAA
*
2089687 ATCTGCTCCACTCCTGCTCAGTGAAGATAAGACTCGCCAAAATTTGATCTGCTTCACTCTTGCTC
66 ATCTGCTCCACTCCTGCTCAGTGAAGATAAGACTCGCCAAAATTTGATCTGCTTCACTCCTGCTC
2089752 AGTGA
131 AGTGA
*
2089757 AGATAAGATCGGGTATGTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAA
1 AGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAA
* *
2089822 ATCTGCTCCACTCCTGCTCAGTGAAGATAAGACTCGCCAAAATTTAATCTGCTTCACTCCTGCTT
66 ATCTGCTCCACTCCTGCTCAGTGAAGATAAGACTCGCCAAAATTTGATCTGCTTCACTCCTGCTC
2089887 AGTGA
131 AGTGA
*
2089892 AGATAAGATCAGGTATGTT
1 AGATAAGATCTGGTATGTT
2089911 CACCGATTTC
Statistics
Matches: 268, Mismatches: 17, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
133 15 0.06
134 4 0.01
135 249 0.93
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (135 bp):
AGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAA
ATCTGCTCCACTCCTGCTCAGTGAAGATAAGACTCGCCAAAATTTGATCTGCTTCACTCCTGCTC
AGTGA
Found at i:2090061 original size:64 final size:65
Alignment explanation
Indices: 2089972--2090100 Score: 188
Period size: 64 Copynumber: 2.0 Consensus size: 65
2089962 TCATGTATCT
* * *
2089972 ATGCCTATGCCAAATAATTAGGATGCAATGATTGAAAT-GAATCAAATGCTCCTATCTAAATGTG
1 ATGCCTATGCCAAATAATTAGGATGCAATGATCGAAATAAAATCAAATGCTCCTAACTAAATGTG
* * * *
2090036 ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATAAAATCAAATGCTCCTAACTAGATGTG
1 ATGCCTATGCCAAATAATTAGGATGCAATGATCGAAATAAAATCAAATGCTCCTAACTAAATGTG
2090101 CTATTGTATA
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
64 34 0.60
65 23 0.40
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (65 bp):
ATGCCTATGCCAAATAATTAGGATGCAATGATCGAAATAAAATCAAATGCTCCTAACTAAATGTG
Found at i:2091210 original size:16 final size:17
Alignment explanation
Indices: 2091189--2091220 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2091179 CTCCAGTTTC
2091189 TTTTTCT-TTTTTTTTA
1 TTTTTCTCTTTTTTTTA
2091205 TTTTTCTCTTTTTTTT
1 TTTTTCTCTTTTTTTT
2091221 TTGAAACTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.88
Consensus pattern (17 bp):
TTTTTCTCTTTTTTTTA
Found at i:2095233 original size:22 final size:23
Alignment explanation
Indices: 2095186--2095244 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 23
2095176 AAAGCCAAGC
*
2095186 TATATACGAATAATTTTAAAGAAAA
1 TATATAC-AATAAATTT-AAGAAAA
2095211 TATATACAATAAATTT-AGAAAA
1 TATATACAATAAATTTAAGAAAA
*
2095233 TATTTAC-ATAAA
1 TATATACAATAAA
2095245 ATAATATGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 5 0.16
22 12 0.38
24 8 0.25
25 7 0.22
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (23 bp):
TATATACAATAAATTTAAGAAAA
Found at i:2104182 original size:25 final size:28
Alignment explanation
Indices: 2104138--2104189 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 28
2104128 ATATATTAAA
*
2104138 AAAATCTTAAGAACTATTT-AAGAAATC
1 AAAATCTTAAGAACAATTTAAAGAAATC
2104165 AAAAT-TTAA-AACAATTTAAAGAAAT
1 AAAATCTTAAGAACAATTTAAAGAAAT
2104190 TATAAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 7 0.30
26 11 0.48
27 5 0.22
ACGTcount: A:0.58, C:0.08, G:0.06, T:0.29
Consensus pattern (28 bp):
AAAATCTTAAGAACAATTTAAAGAAATC
Found at i:2106805 original size:29 final size:31
Alignment explanation
Indices: 2106772--2106834 Score: 87
Period size: 29 Copynumber: 2.1 Consensus size: 31
2106762 TGTTACTTGG
*
2106772 AATTACAATAAA-AAATACAAA-AAAA-GATT
1 AATTACAATAAAGAAA-AAAAAGAAAACGATT
2106801 AATTACAATAAAGAAAAAAAAGAAAACGATT
1 AATTACAATAAAGAAAAAAAAGAAAACGATT
2106832 AAT
1 AAT
2106835 CACATTATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 16 0.53
30 7 0.23
31 7 0.23
ACGTcount: A:0.68, C:0.06, G:0.06, T:0.19
Consensus pattern (31 bp):
AATTACAATAAAGAAAAAAAAGAAAACGATT
Found at i:2110530 original size:19 final size:18
Alignment explanation
Indices: 2110508--2110572 Score: 58
Period size: 20 Copynumber: 3.4 Consensus size: 18
2110498 ATTTTATGTA
2110508 TTTTTATAAAATTTTAGAT
1 TTTTTATAAAATTTTA-AT
** *
2110527 TTTTTAATAAAAAATGAAT
1 TTTTT-ATAAAATTTTAAT
*
2110546 TTTTTATAATAATTATATAT
1 TTTTTATAA-AATTTTA-AT
2110566 TTTTTAT
1 TTTTTAT
2110573 TTTTTAAATA
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
18 4 0.11
19 15 0.42
20 17 0.47
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (18 bp):
TTTTTATAAAATTTTAAT
Found at i:2118881 original size:73 final size:73
Alignment explanation
Indices: 2118762--2118908 Score: 267
Period size: 73 Copynumber: 2.0 Consensus size: 73
2118752 ATCAAGTTCA
* *
2118762 AACTCAATATTATTAATAAGAATAAAAATACTCTTTCTGCTTATATGGTTGAATTTTCTTTATGG
1 AACTCAATATTATTAATAAGAATAAAAATACTCTCTCTGCTTATATGGTTGAATCTTCTTTATGG
2118827 CATTATAG
66 CATTATAG
*
2118835 AACTCAATATTATTAATAAGAATAAAAATACTCTCTCTGTTTATATGGTTGAATCTTCTTTATGG
1 AACTCAATATTATTAATAAGAATAAAAATACTCTCTCTGCTTATATGGTTGAATCTTCTTTATGG
2118900 CATTATAG
66 CATTATAG
2118908 A
1 A
2118909 TTAGGTCATT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (73 bp):
AACTCAATATTATTAATAAGAATAAAAATACTCTCTCTGCTTATATGGTTGAATCTTCTTTATGG
CATTATAG
Found at i:2123330 original size:48 final size:48
Alignment explanation
Indices: 2123255--2123401 Score: 231
Period size: 48 Copynumber: 3.1 Consensus size: 48
2123245 GTGTCATTAA
*
2123255 GAGCTTCATTGATTTGGCTTCGGGCCATGATACTAGCACTTCGGGTGC
1 GAGCTTCATTGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGC
* *
2123303 GAGCTTCATTGATTTGGCTTCGAGCCATGATATTAGCACTTCGGGTGT
1 GAGCTTCATTGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGC
* * * *
2123351 GAGCTTTATTGATTTGGCTTCGGGCCATGATATTGGCACCTAGGGTGC
1 GAGCTTCATTGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGC
2123399 GAG
1 GAG
2123402 ACTTTCGAGT
Statistics
Matches: 90, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 90 1.00
ACGTcount: A:0.18, C:0.20, G:0.30, T:0.33
Consensus pattern (48 bp):
GAGCTTCATTGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGC
Found at i:2129990 original size:29 final size:29
Alignment explanation
Indices: 2129957--2130117 Score: 207
Period size: 29 Copynumber: 5.6 Consensus size: 29
2129947 GTGACGAGAT
2129957 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
2129986 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
2130015 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
2130044 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
2130073 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
2130102 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
2130118 AAATCGAGTA
Statistics
Matches: 117, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
28 2 0.02
29 115 0.98
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:2134722 original size:13 final size:13
Alignment explanation
Indices: 2134704--2134733 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2134694 TGACTGTAAC
*
2134704 CCTTTGTAACAAG
1 CCTTTGCAACAAG
2134717 CCTTTGCAACAAG
1 CCTTTGCAACAAG
2134730 CCTT
1 CCTT
2134734 GCTTTATGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.27, C:0.30, G:0.13, T:0.30
Consensus pattern (13 bp):
CCTTTGCAACAAG
Found at i:2137796 original size:23 final size:22
Alignment explanation
Indices: 2137746--2137797 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
2137736 TTTTATCTGT
2137746 GGTTTTTTATCCTCTTTGGAGG
1 GGTTTTTTATCCTCTTTGGAGG
2137768 GGTTTTTTATCCTCTTTGGAGG
1 GGTTTTTTATCCTCTTTGGAGG
2137790 GGTTTTTT
1 GGTTTTTT
2137798 CACGTTAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.08, C:0.12, G:0.27, T:0.54
Consensus pattern (22 bp):
GGTTTTTTATCCTCTTTGGAGG
Found at i:2140065 original size:6 final size:7
Alignment explanation
Indices: 2140044--2140068 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
2140034 TTATTTTATT
2140044 AAATAAA
1 AAATAAA
2140051 AAATAAA
1 AAATAAA
2140058 AAATAAA
1 AAATAAA
2140065 AAAT
1 AAAT
2140069 CCTTAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (7 bp):
AAATAAA
Found at i:2142769 original size:36 final size:36
Alignment explanation
Indices: 2142722--2142794 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
2142712 CATTCTACTT
*
2142722 ATATAAACATACCAAGTTACATAAGTTCATGTTTTA
1 ATATAAACATACCAAGTTAAATAAGTTCATGTTTTA
*
2142758 ATATAAACATACCAAGTTAAATAAGTTTATGTTTTA
1 ATATAAACATACCAAGTTAAATAAGTTCATGTTTTA
2142794 A
1 A
2142795 CTTCCCTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.37
Consensus pattern (36 bp):
ATATAAACATACCAAGTTAAATAAGTTCATGTTTTA
Done.